senseclusters-users — SenseClusters Users Mailing List

[Senseclusters-users] my youtube channel :o

[Ted P. <tpederse@d.umn.edu>]

I have created a youtube channel. That's a sentence I never really
imagine I would say or write.

http://www.youtube.com/TedPedersenDuluth

I've uploaded two videos thus far, one is a SenseClusters tutorial
from EACL 2006, and the other is an attempt to explain how I got into
NLP.

I've also created some playlists on various topics - I tend to use
videos a fair bit in some of my classes, and so am always on the
lookout for new and interesting content.

Any comments would be gratefully received, and please feel free to
share this channel with anyone you think might find it interesting.

Enjoy,
Ted
---
Ted Pedersen
http://www.d,umn.edu/~tpederse

[Senseclusters-users] SenseClusters web interface has new home!

[Ted P. <tpederse@d.umn.edu>]

The SenseClusters web interface has a new home!

http://maraca.d.umn.edu

This should result in more reliable service. Please let us know if you
have any questions or concerns!

Enjoy,
Ted
---
Ted Pedersen
http://www.d,umn.edu/~tpederse

[Senseclusters-users] SenseClusters version 1.05 released (minor bug fix release)

[Ted P. <dul...@gm...>]

We are pleased to announce a new release of SenseClusters. This is a
very minor bug fix release, but might be something you want to adopt
since it will eliminate some annoying
warning messages that appear as of Perl v 5.15.

In that version of Perl the use of defined (@array) has been
deprecated, and so we have a few spots where we were using this and
where it now causes warnings. That has been resolved, so as of version
1.05 of SenseClusters you should not see these warnings. More about
defined (@array) can be found here, if you are interested :

http://www.perlmonks.org/index.pl?node_id=1077762

You can download the most current version of SenseClusters from CPAN
or Sourceforge by following the links here :

http://senseclusters.sourceforge.net

Please let us know if any questions arise.

Cordially,
Ted
-- 
Ted Pedersen
http://www.d.umn.edu/~tpederse

[Senseclusters-users] talk at Crazy Futures III

[Ted P. <dul...@gm...>]

I gave a talk at a workshop at the end of August that took place in the
Danube Delta of Romania. The workshop was called Crazy Futures III, and
brought together futurists and NLP folks to talk about areas of common
interest, most notably perhaps the problem of horizon scanning.

http://www.incd2020.ro/en/crazy-futures-iii-media-meaning-horizon-scanning-promise-and-limits-natural-language-processing

My talk was about lexicography, which I think has some connection to
horizon scanning. It also connects to some of the work we've done with
SenseClusters. I've atttached the slides here.

http://www.slideshare.net/duluthted/the-horizon-isnt-found-in-a-dictionary-identifying-emerging-word-senses-and-identities-in-raw-text

After the presentation I followed up with the following, which relates to
questions asked or comments made after the presentation.

Wendy recommended Word Spy, which I have since investigated and plan to
spend more time with - it's quite nice, and seems like an excellent source
for new and emerging words.

http://www.wordspy.com/

Related to this, somehow, is another favorite of mine, called Wordnik. It
includes a web interface and an API if one wishes to access it via programs.

https://www.wordnik.com/words/duckface

The idea of a dictionary that defines the sentiment of words was mentioned,
and a few examples exist :

http://www.liwc.net/ (not free, but widely used)

http://sentiwordnet.isti.cnr.it/ (free, see web demo on upper right)

Rex recommended the book "The Lexicographer's Dilemma", which looks
positively great to me. Here's a short excerpt to give you a feel of it.

http://www.nytimes.com/2010/01/01/books/excerpt-lexicographers-dilemma.html

Simon Winchester has written two rather good books about dictionaries,
particularly focusing on OED. Both are far more engaging than one might
first expect books about a dictionary to be (one of them even features
murder!).

The Professor and the Madman
http://www.amazon.com/Professor-Madman-Insanity-English-Dictionary/dp/0060839783/

The Meaning of Everything
http://www.amazon.com/The-Meaning-Everything-English-Dictionary/dp/019517500X

And here is a lecture by Winchester on the second book, which gives a nice
overview of the history of OED.

https://www.youtube.com/watch?v=c3SmOsbLays

And there's more! BBC created a rather nice documentary about pioneering
lexicographer Samuel Johnson which I think is a good deal of fun (they wear
costumes) but is also pretty reliable and accurate.

https://www.youtube.com/watch?v=IpVP8ezoVlM

Enjoy,
Ted

[Senseclusters-users] SenseClusters at NAACL 2015/SemEval

[Ted P. <dul...@gm...>]

Greetings all,

I just wanted to mention that SenseClusters participated in Task 15 of
SemEval 2015, and I'll be presenting a poster about that on Thur June
4 from 2:45 - 4:00 pm (as a part of the SemEval workshop).

Here's a bit more about the task:
http://alt.qcri.org/semeval2015/task15/

And here's the schedule for Semeval :
http://alt.qcri.org/semeval2015/cdrom/program.html

Finally, here's the paper that describes the SenseClusters system :
http://alt.qcri.org/semeval2015/cdrom/pdf/SemEval076.pdf

So, if you will be in Denver it would be nice to see you at the poster
session or some other time!

Cordially,
Ted

Re: [Senseclusters-users] Comparing classification of sense clusters vs. stock naive bayes

[Ted P. <dul...@gm...>]

Hi Pete,

I think a direct comparison with Naive Bayes will be difficult, since Naive
Bayes is most often used as a supervised model, whereas SenseClusters is
unsupervised. SenseClusters doesn't allow for training of the same sort as
done by Naive Bayes, so again a direct comparison would be difficult.
SenseClusters is really intended for use cases where there is not
pre-existing gold standard available, and so it is perhaps more of a sense
discrimination or sense induction tool, whereas Naive Bayes is more a word
sense disambiguation method.

I hope this makes some sense. I think there are still interesting
comparisons that could be done, although I am not sure if they are in line
with what you hope to do. I am happy to discuss further though, if that
seems like it would be helpful.

Cordially,
Ted

On Mon, Mar 16, 2015 at 4:30 PM, Rail, Pete <pet...@hp...> wrote:

>  Hello All,
>
>
>
> I have installed the SenseClusters family of tools on CentOS and reviewed
> the materials  (including the long video seminar in Italy lead by the
> author).
>
>
>
> I am trying to compare the performance of SenseClusters to the simple Perl
> Algorithm::NaiveBayes here:
> http://search.cpan.org/~kwilliams/Algorithm-NaiveBayes-0.04/lib/Algorithm/NaiveBayes.pm
>
>
>
> Although I’ve read through the SenseClusters material and looked at a few
> samples, I fear I’m out of my depth.
>
>
>
> What I would like to do seems simple, but I don’t see it laid out in the
> instructions (which are actually quite thorough..thanks).
>
>
>
> I would like to learn how I can train SenseClusters to a recognize a given
> list of subjects from the same training set I’m using with my Naïve Bayes
> implementation. That way I can compare the performance against my test set
> to determine how much better SenseClusters performs compared to simple
> methods.
>
>
>
> If there are instructions you can point me to, or advice you can provide,
> that would be much appreciated.
>
>
>
> Thanks.
>
>
>
> *Pete Rail*, pet...@hp...
>
>
>
>
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>
>

[Senseclusters-users] Comparing classification of sense clusters vs. stock naive bayes

[Rail, P. <pet...@hp...>]

Hello All,

I have installed the SenseClusters family of tools on CentOS and reviewed the materials  (including the long video seminar in Italy lead by the author).

I am trying to compare the performance of SenseClusters to the simple Perl Algorithm::NaiveBayes here: http://search.cpan.org/~kwilliams/Algorithm-NaiveBayes-0.04/lib/Algorithm/NaiveBayes.pm

Although I've read through the SenseClusters material and looked at a few samples, I fear I'm out of my depth.

What I would like to do seems simple, but I don't see it laid out in the instructions (which are actually quite thorough..thanks).

I would like to learn how I can train SenseClusters to a recognize a given list of subjects from the same training set I'm using with my Naïve Bayes implementation. That way I can compare the performance against my test set to determine how much better SenseClusters performs compared to simple methods.

If there are instructions you can point me to, or advice you can provide, that would be much appreciated.

Thanks.

Pete Rail, pet...@hp...

Re: [Senseclusters-users] Fwd: Re: Senseclusters installation problems

[Ted P. <dul...@gm...>]

Hi Justin,

I think you should be able to force the install of Module::Compile (using
CPAN)

cpan
> force install Module::Compile

The above would be run from the command line (using sudo).

Let's keep our fingers crossed, but it looks like you are nearly there!

Keep us posted.

Good luck,
Ted

On Mon, Mar 16, 2015 at 9:25 AM, <jc...@an...> wrote:

> Hi All,
>
> Thanks for all of your information! I used the ubuntu command to installed
> PDL, and the installation seems progress further, although there seems are
> still missing something. Now the end of message for sudo perl -MCPAN -e
> 'install Bundle::Text::SenseClusters' ; becomes
>
> ...
> Installing /usr/local/bin/reduce-count.pl
> Installing /usr/local/bin/order1vec.pl
> Installing /usr/local/bin/clusterlabeling.pl
> Installing /usr/local/bin/balance.pl
> Installing /usr/local/bin/discriminate.pl
> Installing /usr/local/bin/frequency.pl
> *****************************************************
> Installing SenseClusters Package, V 1.03...
> into /usr/local
> Make sure that the following are in your PATH:
>      /usr/bin
> and that the following is in your MANPATH:
>      /usr/local/man/man1
> After your paths are set, run the test scripts:
>     cd Testing
>     csh ./ALL-TESTS.sh
>     cd ..
> to verify that installation is ok
> *****************************************************
> Appending installation info to
> blib/lib/x86_64-linux-gnu-thread-multi/perllocal.pod
>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
>   sudo /usr/bin/make install  -- OK
> Running install for module 'Module::Compile'
> Running make install
>   make test had returned bad status, won't install without force
> Running make for C/CH/CHM/PDL-2.007.tar.gz
>   Has already been unwrapped into directory
> /usr1/jchiu1/.cpan/build/PDL-2.007-b6dHTA
> Warning: Prerequisite 'Module::Compile => 0.23' for 'CHM/PDL-2.007.tar.gz'
> failed when processing 'INGY/Module-Compile-0.35.tar.gz' with 'make_test
> => NO'. Continuing, but chances to succeed are limited.
>   Has already been made
> Running make test
>   Has already been tested within this command
> Running make install
>   make test had returned bad status, won't install without force
>
> So now there are several perl script in the /usr/local/bin/ folder now,
> yet it still seems lacking 'Module::Compile => 0.23' which I'm not sure
> about that. Can that be installed with CPAN?
>
> Justin
>
> > Thank you, this is a great tip. I tend to use CPAN for Perl module
> > installs, but there is indeed a lot of support among the different Linux
> > distributions that seems to make installs easier (especially with respect
> > to dependencies).
> >
> > Thanks!
> > Ted
> >
> > On Mon, Mar 16, 2015 at 5:58 AM, Alfredo Maldonado Guerra <
> > alf...@wo...> wrote:
> >
> >>  Resending as I sent this from a new email address that needed to be
> >> registered in the mailing list.
> >>
> >>
> >> ---------- Forwarded Message ----------
> >>
> >> Sorry to jump in here. Installing PDL on Ubuntu should be very straight
> >> forward from the command line:
> >>
> >>
> >>
> >> sudo apt-get install pdl pgplot5 libpgplot-perl
> >>
> >>
> >>
> >> This *should* also install other PDL dependencies.
> >>
> >>
> >>
> >> More info on http://pdl.perl.org/?page=install
> >>
> >>
> >>
> >> Thanks,
> >>
> >> Alfredo
> >>
> >> On Monday 16 March 2015 04:41:40 Ted Pedersen wrote:
> >>
> >> This is something you do from the command line. Are you using CPAN to
> >> install the modules? If so, then what you can do is
> >>
> >>
> >> cpan
> >>
> >> > force install PDL
> >>
> >>
> >> So these are two commands you run from the command line (in sudo mode).
> >>
> >>
> >> I hope this helps, and that it works!
> >>
> >>
> >> Good luck,
> >>
> >> Ted
> >>
> >>
> >> On Sun, Mar 15, 2015 at 3:00 PM, <jc...@an...> wrote:
> >>
> >> Hi,
> >>
> >> Sorry I am not very familiar with perl, which file should I modify to
> >> add
> >> these lines? Or are these the command that I should type in my shell? If
> >> you can provide more detail about how to fix this PDL issue I will be
> >> really appreciated. Thanks!
> >>
> >>
> >> Justin
> >>
> >> > It looks like PDL still has some missing dependencies, although I
> >> think
> >> > most of what SenseClusters needs doesn't require that. So, I think I
> >> might
> >> > suggest trying to force the install
> >> >
> >> > from cpan:
> >> >
> >> >> force install PDL
> >> >
> >> > this will override these errors and give you a partial install, but I
> >> > think
> >> > that will be sufficient for SenseClusters.
> >> >
> >> > Otherwise, yes, you will end up chasing down the Proj4 dependency, and
> >> > anything that might follow from that. PDL is sometimes a messy
> >> install,
> >> > although not always...
> >> >
> >> > I hope this helps.
> >> > Ted
> >> >
> >> > On Sat, Mar 14, 2015 at 5:43 PM, <jc...@an...> wrote:
> >> >
> >> >> Hi,
> >> >>
> >> >> After I install F77 and ExtUtils:F77, the error messages are
> >> definitely
> >> >> different now. Yet while installing PDL, at the end it still shows
> >> >>
> >> >> ****
> >> >>         Cannot find Proj library, libproj.a.    Please add the
> >> correct
> >> >> library path to Makefile.PL or install Proj.     Cannot find Proj
> >> >> header file, proj_api.h.       Please add the correct library path
> >> >> to Makefile.PL or install Proj. Skipping build of PDL::GIS::Proj.
> >> >> ****
> >> >> make[3]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
> >> >> make[3]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
> >> >> ****
> >> >>         Cannot find Proj library, libproj.a.    Please add the
> >> correct
> >> >> library path to Makefile.PL or install Proj.     Cannot find Proj
> >> >> header file, proj_api.h.       Please add the correct library path
> >> >> to Makefile.PL or install Proj. Skipping build of PDL::GIS::Proj.
> >> >> ****
> >> >> make[3]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS'
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform'
> >> >> make[3]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
> >> >> make[3]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
> >> >> make[3]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
> >> >> ****
> >> >>    Will skip build of PDL::Transform::Proj4 on this system
> >> >> ****
> >> >> make[3]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
> >> >> make[3]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
> >> >> No tests defined for PDL::Transform::Cartography extension.
> >> >> make[3]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
> >> >> make[3]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
> >> >> ****
> >> >>    Will skip build of PDL::Transform::Proj4 on this system
> >> >> ****
> >> >> make[3]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform'
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Minuit'
> >> >> No tests defined for PDL::Minuit extension.
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Minuit'
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Compression'
> >> >> No tests defined for PDL::Compression extension.
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Compression'
> >> >> make[1]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib'
> >> >> make[1]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2'
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
> >> >> /usr/bin/perl -MPod::Select -e "podselect('pdl2');" > pdl2.pod
> >> >> Skip ../blib/lib/PDL/Perldl2/Script.pm (unchanged)
> >> >> Skip ../blib/lib/PDL/pdl2.pod (unchanged)
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
> >> >> No tests defined for PDL::Perldl2::Profile extension.
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
> >> >> No tests defined for PDL::Perldl2::Plugin extension.
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
> >> >> make[1]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2'
> >> >>   CHM/PDL-2.007.tar.gz
> >> >> Tests succeeded but one dependency not OK (Module::Compile)
> >> >>   CHM/PDL-2.007.tar.gz
> >> >>   [dependencies] -- NA
> >> >> Running make install
> >> >>   make test had returned bad status, won't install without force
> >> >>
> >> >> It seems like there is some Proj4 stuff missing?  I wonder is there
> >> any
> >> >> other toolkit I need to install.
> >> >>
> >> >> Justin
> >> >>
> >> >> > It looks like this has to do with ExtUtils::F77. Do you have a
> >> fortran
> >> >> > compiler installed? :) If not, go ahead and install one (usually
> >> the
> >> >> name
> >> >> > includes f77). Then install ExtUtils::F77 individually, and then
> >> try
> >> >> PDL
> >> >> > again. This is a PDL dependency issue and so doesn't really have
> >> much
> >> >> to
> >> >> > do
> >> >> > with SenseClusters itself, but it's something I've run into from
> >> time
> >> >> to
> >> >> > time. Hopefully this gets all the dependencies installed so that
> >> >> > SenseClusters can then be re-installed.
> >> >> >
> >> >> > Let us know how it goes.
> >> >> >
> >> >> > Good luck,
> >> >> > Ted
> >> >> >
> >> >> > On Fri, Mar 13, 2015 at 8:56 PM, <jc...@an...> wrote:
> >> >> >
> >> >> >> Hi,
> >> >> >>
> >> >> >> When I directly use the command "sudo perl -MCPAN -e 'install PDL'
> >> ;"
> >> >> to
> >> >> >> install PDL, the message shows up
> >> >> >>
> >> >> >> make[3]: Leaving directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/GIS/Proj'
> >> >> >> make[2]: Leaving directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/GIS'
> >> >> >> make[2]: Entering directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform'
> >> >> >> make[3]: Entering directory
> >> >> >>
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
> >> >> >> make[3]: Leaving directory
> >> >> >>
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
> >> >> >> make[3]: Entering directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
> >> >> >> ****
> >> >> >>    Will skip build of PDL::Transform::Proj4 on this system
> >> >> >> ****
> >> >> >> make[3]: Leaving directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
> >> >> >> make[3]: Entering directory
> >> >> >>
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
> >> >> >> No tests defined for PDL::Transform::Cartography extension.
> >> >> >> make[3]: Leaving directory
> >> >> >>
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
> >> >> >> make[3]: Entering directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
> >> >> >> ****
> >> >> >>    Will skip build of PDL::Transform::Proj4 on this system
> >> >> >> ****
> >> >> >> make[3]: Leaving directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
> >> >> >> make[2]: Leaving directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform'
> >> >> >> make[2]: Entering directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Minuit'
> >> >> >> ****
> >> >> >> Can't locate ExtUtils/F77.pm in @INC (@INC contains:
> >> >> >> /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/inc /etc/perl
> >> >> >> /usr0/local/lib/perl/5.14.2 /usr0/local/share/perl/5.14.2
> >> >> /usr/lib/perl5
> >> >> >> /usr/share/perl5 /usr/lib/perl/5.14.2 /usr/share/perl/5.14.2
> >> >> >> /usr/local/lib/site_perl /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p
> >> >> >> /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib .) at (eval 250)
> >> line
> >> >> >> 2.BEGIN failed--compilation aborted at (eval 250) line 2.
> >> >> >> ExtUtils::F77
> >> >> >> module not found. Ought not build PDL::Minuit
> >> >> >> ****
> >> >> >> make[2]: Leaving directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Minuit'
> >> >> >> make[2]: Entering directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Compression'
> >> >> >> No tests defined for PDL::Compression extension.
> >> >> >> make[2]: Leaving directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Compression'
> >> >> >> make[1]: Leaving directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib'
> >> >> >> make[1]: Entering directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2'
> >> >> >> make[2]: Entering directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
> >> >> >> make[2]: Leaving directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
> >> >> >> make[2]: Entering directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
> >> >> >> make[2]: Leaving directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
> >> >> >> /usr/bin/perl -MPod::Select -e "podselect('pdl2');" > pdl2.pod
> >> >> >> Skip ../blib/lib/PDL/Perldl2/Script.pm (unchanged)
> >> >> >> Skip ../blib/lib/PDL/pdl2.pod (unchanged)
> >> >> >> make[2]: Entering directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
> >> >> >> No tests defined for PDL::Perldl2::Profile extension.
> >> >> >> make[2]: Leaving directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
> >> >> >> make[2]: Entering directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
> >> >> >> No tests defined for PDL::Perldl2::Plugin extension.
> >> >> >> make[2]: Leaving directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
> >> >> >> make[1]: Leaving directory
> >> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2'
> >> >> >>   CHM/PDL-2.007.tar.gz
> >> >> >> Tests succeeded but one dependency not OK (Module::Compile)
> >> >> >>   CHM/PDL-2.007.tar.gz
> >> >> >>   [dependencies] -- NA
> >> >> >> Running make install
> >> >> >>   make test had returned bad status, won't install without force
> >> >> >>
> >> >> >> It seems like a similar errors. Actually I think most of the
> >> required
> >> >> >> component shows up similar errors. Thanks.
> >> >> >>
> >> >> >> Justin
> >> >> >>
> >> >> >> > It looks like PDL failed to install. Did you try and install PDL
> >> >> >> > separately? If so, what kind of errors did you get with that?
> >> >> >> >
> >> >> >> > Thanks!
> >> >> >> > Ted
> >> >> >> >
> >> >> >> > On Fri, Mar 13, 2015 at 3:42 PM, <jc...@an...> wrote:
> >> >> >> >
> >> >> >> >> Hi All,
> >> >> >> >>
> >> >> >> >> Right now I am trying to install Senseclusters on my ubuntu
> >> >> machine.
> >> >> >> I
> >> >> >> >> do
> >> >> >> >> have sudo account, so I just use the "perl -MCPAN -e 'install
> >> >> >> >> Bundle::Text::SenseClusters';" command as the documentation
> >> >> >> mentioned.
> >> >> >> >>
> >> >> >> >> However, after the process is completed, there is no perl
> >> script
> >> >> >> >> installed
> >> >> >> >> to my /usr/local/bin folder. At the end of the installation, it
> >> >> says
> >> >> >> >>
> >> >> >> >> Running make test
> >> >> >> >> PERL_DL_NONLAZY=1 /usr/bin/perl "-MExtUtils::Command::MM"
> >> >> >> >> "-MTest::Harness" "-e" "undef *Test::Harness::Switches;
> >> >> >> test_harness(0,
> >> >> >> >> 'blib/lib', 'blib/arch')" t/*.t
> >> >> >> >> t/Text-SenseClusters.t .. ok
> >> >> >> >> All tests successful.
> >> >> >> >> Files=1, Tests=1,  0 wallclock secs ( 0.01 usr  0.00 sys +
> >> 0.01
> >> >> cusr
> >> >> >> >> 0.00 csys =  0.02 CPU)
> >> >> >> >> Result: PASS
> >> >> >> >>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
> >> >> >> >> Tests succeeded but one dependency not OK (PDL)
> >> >> >> >>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
> >> >> >> >>   [dependencies] -- NA
> >> >> >> >> Running make install
> >> >> >> >>   make test had returned bad status, won't install without
> >> force
> >> >> >> >> Running install for module 'Module::Compile'
> >> >> >> >> Running make install
> >> >> >> >>   make test had returned bad status, won't install without
> >> force
> >> >> >> >> Running make for C/CH/CHM/PDL-2.007.tar.gz
> >> >> >> >>   Has already been unwrapped into directory
> >> >> >> >> /usr1/jchiu1/.cpan/build/PDL-2.007-M4Shkn
> >> >> >> >> Warning: Prerequisite 'Module::Compile => 0.23' for
> >> >> >> >> 'CHM/PDL-2.007.tar.gz'
> >> >> >> >> failed when processing 'INGY/Module-Compile-0.35.tar.gz' with
> >> >> >> 'make_test
> >> >> >> >> => NO'. Continuing, but chances to succeed are limited.
> >> >> >> >>   Has already been made
> >> >> >> >> Running make test
> >> >> >> >>   Has already been tested within this command
> >> >> >> >> Running make install
> >> >> >> >>   make test had returned bad status, won't install without
> >> force
> >> >> >> >>
> >> >> >> >> So I try to manually install each of the component, and it
> >> still
> >> >> >> shows
> >> >> >> >> the
> >> >> >> >> same error. (Seems like the make install step just can't work
> >> as
> >> >> it
> >> >> >> >> should) Does anyone know how to fix that? Thank you for reading
> >> >> this
> >> >> >> >> e-mail.
> >> >> >> >>
> >> >> >> >> Justin
> >> >> >> >>
> >> >> >> >>
> >> >> >> >>
> >> >> >> >>
> >> >> >> >>
> >> >> >> >>
> >> >> >>
> >> >>
> >>
> ------------------------------------------------------------------------------
> >> >> >> >> Dive into the World of Parallel Programming The Go Parallel
> >> >> Website,
> >> >> >> >> sponsored
> >> >> >> >> by Intel and developed in partnership with Slashdot Media, is
> >> your
> >> >> >> hub
> >> >> >> >> for
> >> >> >> >> all
> >> >> >> >> things parallel software development, from weekly thought
> >> >> leadership
> >> >> >> >> blogs
> >> >> >> >> to
> >> >> >> >> news, videos, case studies, tutorials and more. Take a look and
> >> >> join
> >> >> >> the
> >> >> >> >> conversation now. http://goparallel.sourceforge.net/
> >> >> >> >> _______________________________________________
> >> >> >> >> senseclusters-users mailing list
> >> >> >> >> sen...@li...
> >> >> >> >>
> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >> >> >> >>
> >> >> >> >
> >> >> >>
> >> >>
> >>
> ------------------------------------------------------------------------------
> >> >> >> > Dive into the World of Parallel Programming The Go Parallel
> >> >> Website,
> >> >> >> > sponsored
> >> >> >> > by Intel and developed in partnership with Slashdot Media, is
> >> your
> >> >> hub
> >> >> >> for
> >> >> >> > all
> >> >> >> > things parallel software development, from weekly thought
> >> >> leadership
> >> >> >> blogs
> >> >> >> > to
> >> >> >> > news, videos, case studies, tutorials and more. Take a look and
> >> >> join
> >> >> >> the
> >> >> >> > conversation now.
> >> >> >> >
> >> >> >>
> >> >>
> >>
> http://goparallel.sourceforge.net/_______________________________________________
> >> >> >> > senseclusters-users mailing list
> >> >> >> > sen...@li...
> >> >> >> >
> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >> >> >> >
> >> >> >>
> >> >> >>
> >> >> >>
> >> >> >>
> >> >> >>
> >> >>
> >>
> ------------------------------------------------------------------------------
> >> >> >> Dive into the World of Parallel Programming The Go Parallel
> >> Website,
> >> >> >> sponsored
> >> >> >> by Intel and developed in partnership with Slashdot Media, is your
> >> >> hub
> >> >> >> for
> >> >> >> all
> >> >> >> things parallel software development, from weekly thought
> >> leadership
> >> >> >> blogs
> >> >> >> to
> >> >> >> news, videos, case studies, tutorials and more. Take a look and
> >> join
> >> >> the
> >> >> >> conversation now. http://goparallel.sourceforge.net/
> >> >> >> _______________________________________________
> >> >> >> senseclusters-users mailing list
> >> >> >> sen...@li...
> >> >> >> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >> >> >>
> >> >> >
> >> >>
> >>
> ------------------------------------------------------------------------------
> >> >> > Dive into the World of Parallel Programming The Go Parallel
> >> Website,
> >> >> > sponsored
> >> >> > by Intel and developed in partnership with Slashdot Media, is your
> >> hub
> >> >> for
> >> >> > all
> >> >> > things parallel software development, from weekly thought
> >> leadership
> >> >> blogs
> >> >> > to
> >> >> > news, videos, case studies, tutorials and more. Take a look and
> >> join
> >> >> the
> >> >> > conversation now.
> >> >> >
> >> >>
> >>
> http://goparallel.sourceforge.net/_______________________________________________
> >> >> > senseclusters-users mailing list
> >> >> > sen...@li...
> >> >> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >> >> >
> >> >>
> >> >>
> >> >>
> >> >>
> >> >>
> >>
> ------------------------------------------------------------------------------
> >> >> Dive into the World of Parallel Programming The Go Parallel Website,
> >> >> sponsored
> >> >> by Intel and developed in partnership with Slashdot Media, is your
> >> hub
> >> >> for
> >> >> all
> >> >> things parallel software development, from weekly thought leadership
> >> >> blogs
> >> >> to
> >> >> news, videos, case studies, tutorials and more. Take a look and join
> >> the
> >> >> conversation now. http://goparallel.sourceforge.net/
> >> >> _______________________________________________
> >> >> senseclusters-users mailing list
> >> >> sen...@li...
> >> >> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >> >>
> >> >
> >>
> ------------------------------------------------------------------------------
> >> > Dive into the World of Parallel Programming The Go Parallel Website,
> >> > sponsored
> >> > by Intel and developed in partnership with Slashdot Media, is your hub
> >> for
> >> > all
> >> > things parallel software development, from weekly thought leadership
> >> blogs
> >> > to
> >> > news, videos, case studies, tutorials and more. Take a look and join
> >> the
> >> > conversation now.
> >> >
> >>
> http://goparallel.sourceforge.net/_______________________________________________
> >> > senseclusters-users mailing list
> >> > sen...@li...
> >> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >> >
> >>
> >>
> >>
> >>
> >>
> ------------------------------------------------------------------------------
> >> Dive into the World of Parallel Programming The Go Parallel Website,
> >> sponsored
> >> by Intel and developed in partnership with Slashdot Media, is your hub
> >> for
> >> all
> >> things parallel software development, from weekly thought leadership
> >> blogs
> >> to
> >> news, videos, case studies, tutorials and more. Take a look and join the
> >> conversation now. http://goparallel.sourceforge.net/
> >> _______________________________________________
> >> senseclusters-users mailing list
> >> sen...@li...
> >> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >>
> >>
> >>
> >>
> >>
> >> -----------------------------------------
> >>
> >>
> >>
> ------------------------------------------------------------------------------
> >> Dive into the World of Parallel Programming The Go Parallel Website,
> >> sponsored
> >> by Intel and developed in partnership with Slashdot Media, is your hub
> >> for
> >> all
> >> things parallel software development, from weekly thought leadership
> >> blogs
> >> to
> >> news, videos, case studies, tutorials and more. Take a look and join the
> >> conversation now. http://goparallel.sourceforge.net/
> >> _______________________________________________
> >> senseclusters-users mailing list
> >> sen...@li...
> >> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >>
> >>
> >
> ------------------------------------------------------------------------------
> > Dive into the World of Parallel Programming The Go Parallel Website,
> > sponsored
> > by Intel and developed in partnership with Slashdot Media, is your hub
> for
> > all
> > things parallel software development, from weekly thought leadership
> blogs
> > to
> > news, videos, case studies, tutorials and more. Take a look and join the
> > conversation now.
> >
> http://goparallel.sourceforge.net/_______________________________________________
> > senseclusters-users mailing list
> > sen...@li...
> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >
>
>
>
>
> ------------------------------------------------------------------------------
> Dive into the World of Parallel Programming The Go Parallel Website,
> sponsored
> by Intel and developed in partnership with Slashdot Media, is your hub for
> all
> things parallel software development, from weekly thought leadership blogs
> to
> news, videos, case studies, tutorials and more. Take a look and join the
> conversation now. http://goparallel.sourceforge.net/
> _______________________________________________
> senseclusters-users mailing list
> sen...@li...
> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>

Re: [Senseclusters-users] Fwd: Re: Senseclusters installation problems

[<jc...@an...>]

Hi All,

Thanks for all of your information! I used the ubuntu command to installed
PDL, and the installation seems progress further, although there seems are
still missing something. Now the end of message for sudo perl -MCPAN -e
'install Bundle::Text::SenseClusters' ; becomes

...
Installing /usr/local/bin/reduce-count.pl
Installing /usr/local/bin/order1vec.pl
Installing /usr/local/bin/clusterlabeling.pl
Installing /usr/local/bin/balance.pl
Installing /usr/local/bin/discriminate.pl
Installing /usr/local/bin/frequency.pl
*****************************************************
Installing SenseClusters Package, V 1.03...
into /usr/local
Make sure that the following are in your PATH:
     /usr/bin
and that the following is in your MANPATH:
     /usr/local/man/man1
After your paths are set, run the test scripts:
    cd Testing
    csh ./ALL-TESTS.sh
    cd ..
to verify that installation is ok
*****************************************************
Appending installation info to
blib/lib/x86_64-linux-gnu-thread-multi/perllocal.pod
  TPEDERSE/Text-SenseClusters-1.03.tar.gz
  sudo /usr/bin/make install  -- OK
Running install for module 'Module::Compile'
Running make install
  make test had returned bad status, won't install without force
Running make for C/CH/CHM/PDL-2.007.tar.gz
  Has already been unwrapped into directory
/usr1/jchiu1/.cpan/build/PDL-2.007-b6dHTA
Warning: Prerequisite 'Module::Compile => 0.23' for 'CHM/PDL-2.007.tar.gz'
failed when processing 'INGY/Module-Compile-0.35.tar.gz' with 'make_test
=> NO'. Continuing, but chances to succeed are limited.
  Has already been made
Running make test
  Has already been tested within this command
Running make install
  make test had returned bad status, won't install without force

So now there are several perl script in the /usr/local/bin/ folder now,
yet it still seems lacking 'Module::Compile => 0.23' which I'm not sure
about that. Can that be installed with CPAN?

Justin

> Thank you, this is a great tip. I tend to use CPAN for Perl module
> installs, but there is indeed a lot of support among the different Linux
> distributions that seems to make installs easier (especially with respect
> to dependencies).
>
> Thanks!
> Ted
>
> On Mon, Mar 16, 2015 at 5:58 AM, Alfredo Maldonado Guerra <
> alf...@wo...> wrote:
>
>>  Resending as I sent this from a new email address that needed to be
>> registered in the mailing list.
>>
>>
>> ---------- Forwarded Message ----------
>>
>> Sorry to jump in here. Installing PDL on Ubuntu should be very straight
>> forward from the command line:
>>
>>
>>
>> sudo apt-get install pdl pgplot5 libpgplot-perl
>>
>>
>>
>> This *should* also install other PDL dependencies.
>>
>>
>>
>> More info on http://pdl.perl.org/?page=install
>>
>>
>>
>> Thanks,
>>
>> Alfredo
>>
>> On Monday 16 March 2015 04:41:40 Ted Pedersen wrote:
>>
>> This is something you do from the command line. Are you using CPAN to
>> install the modules? If so, then what you can do is
>>
>>
>> cpan
>>
>> > force install PDL
>>
>>
>> So these are two commands you run from the command line (in sudo mode).
>>
>>
>> I hope this helps, and that it works!
>>
>>
>> Good luck,
>>
>> Ted
>>
>>
>> On Sun, Mar 15, 2015 at 3:00 PM, <jc...@an...> wrote:
>>
>> Hi,
>>
>> Sorry I am not very familiar with perl, which file should I modify to
>> add
>> these lines? Or are these the command that I should type in my shell? If
>> you can provide more detail about how to fix this PDL issue I will be
>> really appreciated. Thanks!
>>
>>
>> Justin
>>
>> > It looks like PDL still has some missing dependencies, although I
>> think
>> > most of what SenseClusters needs doesn't require that. So, I think I
>> might
>> > suggest trying to force the install
>> >
>> > from cpan:
>> >
>> >> force install PDL
>> >
>> > this will override these errors and give you a partial install, but I
>> > think
>> > that will be sufficient for SenseClusters.
>> >
>> > Otherwise, yes, you will end up chasing down the Proj4 dependency, and
>> > anything that might follow from that. PDL is sometimes a messy
>> install,
>> > although not always...
>> >
>> > I hope this helps.
>> > Ted
>> >
>> > On Sat, Mar 14, 2015 at 5:43 PM, <jc...@an...> wrote:
>> >
>> >> Hi,
>> >>
>> >> After I install F77 and ExtUtils:F77, the error messages are
>> definitely
>> >> different now. Yet while installing PDL, at the end it still shows
>> >>
>> >> ****
>> >>         Cannot find Proj library, libproj.a.    Please add the
>> correct
>> >> library path to Makefile.PL or install Proj.     Cannot find Proj
>> >> header file, proj_api.h.       Please add the correct library path
>> >> to Makefile.PL or install Proj. Skipping build of PDL::GIS::Proj.
>> >> ****
>> >> make[3]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
>> >> make[3]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
>> >> ****
>> >>         Cannot find Proj library, libproj.a.    Please add the
>> correct
>> >> library path to Makefile.PL or install Proj.     Cannot find Proj
>> >> header file, proj_api.h.       Please add the correct library path
>> >> to Makefile.PL or install Proj. Skipping build of PDL::GIS::Proj.
>> >> ****
>> >> make[3]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
>> >> make[2]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS'
>> >> make[2]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform'
>> >> make[3]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
>> >> make[3]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
>> >> make[3]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
>> >> ****
>> >>    Will skip build of PDL::Transform::Proj4 on this system
>> >> ****
>> >> make[3]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
>> >> make[3]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
>> >> No tests defined for PDL::Transform::Cartography extension.
>> >> make[3]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
>> >> make[3]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
>> >> ****
>> >>    Will skip build of PDL::Transform::Proj4 on this system
>> >> ****
>> >> make[3]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
>> >> make[2]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform'
>> >> make[2]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Minuit'
>> >> No tests defined for PDL::Minuit extension.
>> >> make[2]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Minuit'
>> >> make[2]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Compression'
>> >> No tests defined for PDL::Compression extension.
>> >> make[2]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Compression'
>> >> make[1]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib'
>> >> make[1]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2'
>> >> make[2]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
>> >> make[2]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
>> >> make[2]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
>> >> make[2]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
>> >> /usr/bin/perl -MPod::Select -e "podselect('pdl2');" > pdl2.pod
>> >> Skip ../blib/lib/PDL/Perldl2/Script.pm (unchanged)
>> >> Skip ../blib/lib/PDL/pdl2.pod (unchanged)
>> >> make[2]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
>> >> No tests defined for PDL::Perldl2::Profile extension.
>> >> make[2]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
>> >> make[2]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
>> >> No tests defined for PDL::Perldl2::Plugin extension.
>> >> make[2]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
>> >> make[1]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2'
>> >>   CHM/PDL-2.007.tar.gz
>> >> Tests succeeded but one dependency not OK (Module::Compile)
>> >>   CHM/PDL-2.007.tar.gz
>> >>   [dependencies] -- NA
>> >> Running make install
>> >>   make test had returned bad status, won't install without force
>> >>
>> >> It seems like there is some Proj4 stuff missing?  I wonder is there
>> any
>> >> other toolkit I need to install.
>> >>
>> >> Justin
>> >>
>> >> > It looks like this has to do with ExtUtils::F77. Do you have a
>> fortran
>> >> > compiler installed? :) If not, go ahead and install one (usually
>> the
>> >> name
>> >> > includes f77). Then install ExtUtils::F77 individually, and then
>> try
>> >> PDL
>> >> > again. This is a PDL dependency issue and so doesn't really have
>> much
>> >> to
>> >> > do
>> >> > with SenseClusters itself, but it's something I've run into from
>> time
>> >> to
>> >> > time. Hopefully this gets all the dependencies installed so that
>> >> > SenseClusters can then be re-installed.
>> >> >
>> >> > Let us know how it goes.
>> >> >
>> >> > Good luck,
>> >> > Ted
>> >> >
>> >> > On Fri, Mar 13, 2015 at 8:56 PM, <jc...@an...> wrote:
>> >> >
>> >> >> Hi,
>> >> >>
>> >> >> When I directly use the command "sudo perl -MCPAN -e 'install PDL'
>> ;"
>> >> to
>> >> >> install PDL, the message shows up
>> >> >>
>> >> >> make[3]: Leaving directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/GIS/Proj'
>> >> >> make[2]: Leaving directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/GIS'
>> >> >> make[2]: Entering directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform'
>> >> >> make[3]: Entering directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
>> >> >> make[3]: Leaving directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
>> >> >> make[3]: Entering directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
>> >> >> ****
>> >> >>    Will skip build of PDL::Transform::Proj4 on this system
>> >> >> ****
>> >> >> make[3]: Leaving directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
>> >> >> make[3]: Entering directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
>> >> >> No tests defined for PDL::Transform::Cartography extension.
>> >> >> make[3]: Leaving directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
>> >> >> make[3]: Entering directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
>> >> >> ****
>> >> >>    Will skip build of PDL::Transform::Proj4 on this system
>> >> >> ****
>> >> >> make[3]: Leaving directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
>> >> >> make[2]: Leaving directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform'
>> >> >> make[2]: Entering directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Minuit'
>> >> >> ****
>> >> >> Can't locate ExtUtils/F77.pm in @INC (@INC contains:
>> >> >> /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/inc /etc/perl
>> >> >> /usr0/local/lib/perl/5.14.2 /usr0/local/share/perl/5.14.2
>> >> /usr/lib/perl5
>> >> >> /usr/share/perl5 /usr/lib/perl/5.14.2 /usr/share/perl/5.14.2
>> >> >> /usr/local/lib/site_perl /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p
>> >> >> /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib .) at (eval 250)
>> line
>> >> >> 2.BEGIN failed--compilation aborted at (eval 250) line 2.
>> >> >> ExtUtils::F77
>> >> >> module not found. Ought not build PDL::Minuit
>> >> >> ****
>> >> >> make[2]: Leaving directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Minuit'
>> >> >> make[2]: Entering directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Compression'
>> >> >> No tests defined for PDL::Compression extension.
>> >> >> make[2]: Leaving directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Compression'
>> >> >> make[1]: Leaving directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib'
>> >> >> make[1]: Entering directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2'
>> >> >> make[2]: Entering directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
>> >> >> make[2]: Leaving directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
>> >> >> make[2]: Entering directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
>> >> >> make[2]: Leaving directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
>> >> >> /usr/bin/perl -MPod::Select -e "podselect('pdl2');" > pdl2.pod
>> >> >> Skip ../blib/lib/PDL/Perldl2/Script.pm (unchanged)
>> >> >> Skip ../blib/lib/PDL/pdl2.pod (unchanged)
>> >> >> make[2]: Entering directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
>> >> >> No tests defined for PDL::Perldl2::Profile extension.
>> >> >> make[2]: Leaving directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
>> >> >> make[2]: Entering directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
>> >> >> No tests defined for PDL::Perldl2::Plugin extension.
>> >> >> make[2]: Leaving directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
>> >> >> make[1]: Leaving directory
>> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2'
>> >> >>   CHM/PDL-2.007.tar.gz
>> >> >> Tests succeeded but one dependency not OK (Module::Compile)
>> >> >>   CHM/PDL-2.007.tar.gz
>> >> >>   [dependencies] -- NA
>> >> >> Running make install
>> >> >>   make test had returned bad status, won't install without force
>> >> >>
>> >> >> It seems like a similar errors. Actually I think most of the
>> required
>> >> >> component shows up similar errors. Thanks.
>> >> >>
>> >> >> Justin
>> >> >>
>> >> >> > It looks like PDL failed to install. Did you try and install PDL
>> >> >> > separately? If so, what kind of errors did you get with that?
>> >> >> >
>> >> >> > Thanks!
>> >> >> > Ted
>> >> >> >
>> >> >> > On Fri, Mar 13, 2015 at 3:42 PM, <jc...@an...> wrote:
>> >> >> >
>> >> >> >> Hi All,
>> >> >> >>
>> >> >> >> Right now I am trying to install Senseclusters on my ubuntu
>> >> machine.
>> >> >> I
>> >> >> >> do
>> >> >> >> have sudo account, so I just use the "perl -MCPAN -e 'install
>> >> >> >> Bundle::Text::SenseClusters';" command as the documentation
>> >> >> mentioned.
>> >> >> >>
>> >> >> >> However, after the process is completed, there is no perl
>> script
>> >> >> >> installed
>> >> >> >> to my /usr/local/bin folder. At the end of the installation, it
>> >> says
>> >> >> >>
>> >> >> >> Running make test
>> >> >> >> PERL_DL_NONLAZY=1 /usr/bin/perl "-MExtUtils::Command::MM"
>> >> >> >> "-MTest::Harness" "-e" "undef *Test::Harness::Switches;
>> >> >> test_harness(0,
>> >> >> >> 'blib/lib', 'blib/arch')" t/*.t
>> >> >> >> t/Text-SenseClusters.t .. ok
>> >> >> >> All tests successful.
>> >> >> >> Files=1, Tests=1,  0 wallclock secs ( 0.01 usr  0.00 sys +
>> 0.01
>> >> cusr
>> >> >> >> 0.00 csys =  0.02 CPU)
>> >> >> >> Result: PASS
>> >> >> >>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
>> >> >> >> Tests succeeded but one dependency not OK (PDL)
>> >> >> >>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
>> >> >> >>   [dependencies] -- NA
>> >> >> >> Running make install
>> >> >> >>   make test had returned bad status, won't install without
>> force
>> >> >> >> Running install for module 'Module::Compile'
>> >> >> >> Running make install
>> >> >> >>   make test had returned bad status, won't install without
>> force
>> >> >> >> Running make for C/CH/CHM/PDL-2.007.tar.gz
>> >> >> >>   Has already been unwrapped into directory
>> >> >> >> /usr1/jchiu1/.cpan/build/PDL-2.007-M4Shkn
>> >> >> >> Warning: Prerequisite 'Module::Compile => 0.23' for
>> >> >> >> 'CHM/PDL-2.007.tar.gz'
>> >> >> >> failed when processing 'INGY/Module-Compile-0.35.tar.gz' with
>> >> >> 'make_test
>> >> >> >> => NO'. Continuing, but chances to succeed are limited.
>> >> >> >>   Has already been made
>> >> >> >> Running make test
>> >> >> >>   Has already been tested within this command
>> >> >> >> Running make install
>> >> >> >>   make test had returned bad status, won't install without
>> force
>> >> >> >>
>> >> >> >> So I try to manually install each of the component, and it
>> still
>> >> >> shows
>> >> >> >> the
>> >> >> >> same error. (Seems like the make install step just can't work
>> as
>> >> it
>> >> >> >> should) Does anyone know how to fix that? Thank you for reading
>> >> this
>> >> >> >> e-mail.
>> >> >> >>
>> >> >> >> Justin
>> >> >> >>
>> >> >> >>
>> >> >> >>
>> >> >> >>
>> >> >> >>
>> >> >> >>
>> >> >>
>> >>
>> ------------------------------------------------------------------------------
>> >> >> >> Dive into the World of Parallel Programming The Go Parallel
>> >> Website,
>> >> >> >> sponsored
>> >> >> >> by Intel and developed in partnership with Slashdot Media, is
>> your
>> >> >> hub
>> >> >> >> for
>> >> >> >> all
>> >> >> >> things parallel software development, from weekly thought
>> >> leadership
>> >> >> >> blogs
>> >> >> >> to
>> >> >> >> news, videos, case studies, tutorials and more. Take a look and
>> >> join
>> >> >> the
>> >> >> >> conversation now. http://goparallel.sourceforge.net/
>> >> >> >> _______________________________________________
>> >> >> >> senseclusters-users mailing list
>> >> >> >> sen...@li...
>> >> >> >> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>> >> >> >>
>> >> >> >
>> >> >>
>> >>
>> ------------------------------------------------------------------------------
>> >> >> > Dive into the World of Parallel Programming The Go Parallel
>> >> Website,
>> >> >> > sponsored
>> >> >> > by Intel and developed in partnership with Slashdot Media, is
>> your
>> >> hub
>> >> >> for
>> >> >> > all
>> >> >> > things parallel software development, from weekly thought
>> >> leadership
>> >> >> blogs
>> >> >> > to
>> >> >> > news, videos, case studies, tutorials and more. Take a look and
>> >> join
>> >> >> the
>> >> >> > conversation now.
>> >> >> >
>> >> >>
>> >>
>> http://goparallel.sourceforge.net/_______________________________________________
>> >> >> > senseclusters-users mailing list
>> >> >> > sen...@li...
>> >> >> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>> >> >> >
>> >> >>
>> >> >>
>> >> >>
>> >> >>
>> >> >>
>> >>
>> ------------------------------------------------------------------------------
>> >> >> Dive into the World of Parallel Programming The Go Parallel
>> Website,
>> >> >> sponsored
>> >> >> by Intel and developed in partnership with Slashdot Media, is your
>> >> hub
>> >> >> for
>> >> >> all
>> >> >> things parallel software development, from weekly thought
>> leadership
>> >> >> blogs
>> >> >> to
>> >> >> news, videos, case studies, tutorials and more. Take a look and
>> join
>> >> the
>> >> >> conversation now. http://goparallel.sourceforge.net/
>> >> >> _______________________________________________
>> >> >> senseclusters-users mailing list
>> >> >> sen...@li...
>> >> >> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>> >> >>
>> >> >
>> >>
>> ------------------------------------------------------------------------------
>> >> > Dive into the World of Parallel Programming The Go Parallel
>> Website,
>> >> > sponsored
>> >> > by Intel and developed in partnership with Slashdot Media, is your
>> hub
>> >> for
>> >> > all
>> >> > things parallel software development, from weekly thought
>> leadership
>> >> blogs
>> >> > to
>> >> > news, videos, case studies, tutorials and more. Take a look and
>> join
>> >> the
>> >> > conversation now.
>> >> >
>> >>
>> http://goparallel.sourceforge.net/_______________________________________________
>> >> > senseclusters-users mailing list
>> >> > sen...@li...
>> >> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>> >> >
>> >>
>> >>
>> >>
>> >>
>> >>
>> ------------------------------------------------------------------------------
>> >> Dive into the World of Parallel Programming The Go Parallel Website,
>> >> sponsored
>> >> by Intel and developed in partnership with Slashdot Media, is your
>> hub
>> >> for
>> >> all
>> >> things parallel software development, from weekly thought leadership
>> >> blogs
>> >> to
>> >> news, videos, case studies, tutorials and more. Take a look and join
>> the
>> >> conversation now. http://goparallel.sourceforge.net/
>> >> _______________________________________________
>> >> senseclusters-users mailing list
>> >> sen...@li...
>> >> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>> >>
>> >
>> ------------------------------------------------------------------------------
>> > Dive into the World of Parallel Programming The Go Parallel Website,
>> > sponsored
>> > by Intel and developed in partnership with Slashdot Media, is your hub
>> for
>> > all
>> > things parallel software development, from weekly thought leadership
>> blogs
>> > to
>> > news, videos, case studies, tutorials and more. Take a look and join
>> the
>> > conversation now.
>> >
>> http://goparallel.sourceforge.net/_______________________________________________
>> > senseclusters-users mailing list
>> > sen...@li...
>> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>> >
>>
>>
>>
>>
>> ------------------------------------------------------------------------------
>> Dive into the World of Parallel Programming The Go Parallel Website,
>> sponsored
>> by Intel and developed in partnership with Slashdot Media, is your hub
>> for
>> all
>> things parallel software development, from weekly thought leadership
>> blogs
>> to
>> news, videos, case studies, tutorials and more. Take a look and join the
>> conversation now. http://goparallel.sourceforge.net/
>> _______________________________________________
>> senseclusters-users mailing list
>> sen...@li...
>> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>>
>>
>>
>>
>>
>> -----------------------------------------
>>
>>
>> ------------------------------------------------------------------------------
>> Dive into the World of Parallel Programming The Go Parallel Website,
>> sponsored
>> by Intel and developed in partnership with Slashdot Media, is your hub
>> for
>> all
>> things parallel software development, from weekly thought leadership
>> blogs
>> to
>> news, videos, case studies, tutorials and more. Take a look and join the
>> conversation now. http://goparallel.sourceforge.net/
>> _______________________________________________
>> senseclusters-users mailing list
>> sen...@li...
>> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>>
>>
> ------------------------------------------------------------------------------
> Dive into the World of Parallel Programming The Go Parallel Website,
> sponsored
> by Intel and developed in partnership with Slashdot Media, is your hub for
> all
> things parallel software development, from weekly thought leadership blogs
> to
> news, videos, case studies, tutorials and more. Take a look and join the
> conversation now.
> http://goparallel.sourceforge.net/_______________________________________________
> senseclusters-users mailing list
> sen...@li...
> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>

Re: [Senseclusters-users] Fwd: Re: Senseclusters installation problems

[Ted P. <dul...@gm...>]

Thank you, this is a great tip. I tend to use CPAN for Perl module
installs, but there is indeed a lot of support among the different Linux
distributions that seems to make installs easier (especially with respect
to dependencies).

Thanks!
Ted

On Mon, Mar 16, 2015 at 5:58 AM, Alfredo Maldonado Guerra <
alf...@wo...> wrote:

>  Resending as I sent this from a new email address that needed to be
> registered in the mailing list.
>
>
> ---------- Forwarded Message ----------
>
> Sorry to jump in here. Installing PDL on Ubuntu should be very straight
> forward from the command line:
>
>
>
> sudo apt-get install pdl pgplot5 libpgplot-perl
>
>
>
> This *should* also install other PDL dependencies.
>
>
>
> More info on http://pdl.perl.org/?page=install
>
>
>
> Thanks,
>
> Alfredo
>
> On Monday 16 March 2015 04:41:40 Ted Pedersen wrote:
>
> This is something you do from the command line. Are you using CPAN to
> install the modules? If so, then what you can do is
>
>
> cpan
>
> > force install PDL
>
>
> So these are two commands you run from the command line (in sudo mode).
>
>
> I hope this helps, and that it works!
>
>
> Good luck,
>
> Ted
>
>
> On Sun, Mar 15, 2015 at 3:00 PM, <jc...@an...> wrote:
>
> Hi,
>
> Sorry I am not very familiar with perl, which file should I modify to add
> these lines? Or are these the command that I should type in my shell? If
> you can provide more detail about how to fix this PDL issue I will be
> really appreciated. Thanks!
>
>
> Justin
>
> > It looks like PDL still has some missing dependencies, although I think
> > most of what SenseClusters needs doesn't require that. So, I think I
> might
> > suggest trying to force the install
> >
> > from cpan:
> >
> >> force install PDL
> >
> > this will override these errors and give you a partial install, but I
> > think
> > that will be sufficient for SenseClusters.
> >
> > Otherwise, yes, you will end up chasing down the Proj4 dependency, and
> > anything that might follow from that. PDL is sometimes a messy install,
> > although not always...
> >
> > I hope this helps.
> > Ted
> >
> > On Sat, Mar 14, 2015 at 5:43 PM, <jc...@an...> wrote:
> >
> >> Hi,
> >>
> >> After I install F77 and ExtUtils:F77, the error messages are definitely
> >> different now. Yet while installing PDL, at the end it still shows
> >>
> >> ****
> >>         Cannot find Proj library, libproj.a.    Please add the correct
> >> library path to Makefile.PL or install Proj.     Cannot find Proj
> >> header file, proj_api.h.       Please add the correct library path
> >> to Makefile.PL or install Proj. Skipping build of PDL::GIS::Proj.
> >> ****
> >> make[3]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
> >> make[3]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
> >> ****
> >>         Cannot find Proj library, libproj.a.    Please add the correct
> >> library path to Makefile.PL or install Proj.     Cannot find Proj
> >> header file, proj_api.h.       Please add the correct library path
> >> to Makefile.PL or install Proj. Skipping build of PDL::GIS::Proj.
> >> ****
> >> make[3]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS'
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform'
> >> make[3]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
> >> make[3]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
> >> make[3]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
> >> ****
> >>    Will skip build of PDL::Transform::Proj4 on this system
> >> ****
> >> make[3]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
> >> make[3]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
> >> No tests defined for PDL::Transform::Cartography extension.
> >> make[3]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
> >> make[3]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
> >> ****
> >>    Will skip build of PDL::Transform::Proj4 on this system
> >> ****
> >> make[3]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform'
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Minuit'
> >> No tests defined for PDL::Minuit extension.
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Minuit'
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Compression'
> >> No tests defined for PDL::Compression extension.
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Compression'
> >> make[1]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib'
> >> make[1]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2'
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
> >> /usr/bin/perl -MPod::Select -e "podselect('pdl2');" > pdl2.pod
> >> Skip ../blib/lib/PDL/Perldl2/Script.pm (unchanged)
> >> Skip ../blib/lib/PDL/pdl2.pod (unchanged)
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
> >> No tests defined for PDL::Perldl2::Profile extension.
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
> >> No tests defined for PDL::Perldl2::Plugin extension.
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
> >> make[1]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2'
> >>   CHM/PDL-2.007.tar.gz
> >> Tests succeeded but one dependency not OK (Module::Compile)
> >>   CHM/PDL-2.007.tar.gz
> >>   [dependencies] -- NA
> >> Running make install
> >>   make test had returned bad status, won't install without force
> >>
> >> It seems like there is some Proj4 stuff missing?  I wonder is there any
> >> other toolkit I need to install.
> >>
> >> Justin
> >>
> >> > It looks like this has to do with ExtUtils::F77. Do you have a fortran
> >> > compiler installed? :) If not, go ahead and install one (usually the
> >> name
> >> > includes f77). Then install ExtUtils::F77 individually, and then try
> >> PDL
> >> > again. This is a PDL dependency issue and so doesn't really have much
> >> to
> >> > do
> >> > with SenseClusters itself, but it's something I've run into from time
> >> to
> >> > time. Hopefully this gets all the dependencies installed so that
> >> > SenseClusters can then be re-installed.
> >> >
> >> > Let us know how it goes.
> >> >
> >> > Good luck,
> >> > Ted
> >> >
> >> > On Fri, Mar 13, 2015 at 8:56 PM, <jc...@an...> wrote:
> >> >
> >> >> Hi,
> >> >>
> >> >> When I directly use the command "sudo perl -MCPAN -e 'install PDL' ;"
> >> to
> >> >> install PDL, the message shows up
> >> >>
> >> >> make[3]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/GIS/Proj'
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/GIS'
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform'
> >> >> make[3]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
> >> >> make[3]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
> >> >> make[3]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
> >> >> ****
> >> >>    Will skip build of PDL::Transform::Proj4 on this system
> >> >> ****
> >> >> make[3]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
> >> >> make[3]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
> >> >> No tests defined for PDL::Transform::Cartography extension.
> >> >> make[3]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
> >> >> make[3]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
> >> >> ****
> >> >>    Will skip build of PDL::Transform::Proj4 on this system
> >> >> ****
> >> >> make[3]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform'
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Minuit'
> >> >> ****
> >> >> Can't locate ExtUtils/F77.pm in @INC (@INC contains:
> >> >> /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/inc /etc/perl
> >> >> /usr0/local/lib/perl/5.14.2 /usr0/local/share/perl/5.14.2
> >> /usr/lib/perl5
> >> >> /usr/share/perl5 /usr/lib/perl/5.14.2 /usr/share/perl/5.14.2
> >> >> /usr/local/lib/site_perl /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p
> >> >> /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib .) at (eval 250) line
> >> >> 2.BEGIN failed--compilation aborted at (eval 250) line 2.
> >> >> ExtUtils::F77
> >> >> module not found. Ought not build PDL::Minuit
> >> >> ****
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Minuit'
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Compression'
> >> >> No tests defined for PDL::Compression extension.
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Compression'
> >> >> make[1]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib'
> >> >> make[1]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2'
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
> >> >> /usr/bin/perl -MPod::Select -e "podselect('pdl2');" > pdl2.pod
> >> >> Skip ../blib/lib/PDL/Perldl2/Script.pm (unchanged)
> >> >> Skip ../blib/lib/PDL/pdl2.pod (unchanged)
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
> >> >> No tests defined for PDL::Perldl2::Profile extension.
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
> >> >> No tests defined for PDL::Perldl2::Plugin extension.
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
> >> >> make[1]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2'
> >> >>   CHM/PDL-2.007.tar.gz
> >> >> Tests succeeded but one dependency not OK (Module::Compile)
> >> >>   CHM/PDL-2.007.tar.gz
> >> >>   [dependencies] -- NA
> >> >> Running make install
> >> >>   make test had returned bad status, won't install without force
> >> >>
> >> >> It seems like a similar errors. Actually I think most of the required
> >> >> component shows up similar errors. Thanks.
> >> >>
> >> >> Justin
> >> >>
> >> >> > It looks like PDL failed to install. Did you try and install PDL
> >> >> > separately? If so, what kind of errors did you get with that?
> >> >> >
> >> >> > Thanks!
> >> >> > Ted
> >> >> >
> >> >> > On Fri, Mar 13, 2015 at 3:42 PM, <jc...@an...> wrote:
> >> >> >
> >> >> >> Hi All,
> >> >> >>
> >> >> >> Right now I am trying to install Senseclusters on my ubuntu
> >> machine.
> >> >> I
> >> >> >> do
> >> >> >> have sudo account, so I just use the "perl -MCPAN -e 'install
> >> >> >> Bundle::Text::SenseClusters';" command as the documentation
> >> >> mentioned.
> >> >> >>
> >> >> >> However, after the process is completed, there is no perl script
> >> >> >> installed
> >> >> >> to my /usr/local/bin folder. At the end of the installation, it
> >> says
> >> >> >>
> >> >> >> Running make test
> >> >> >> PERL_DL_NONLAZY=1 /usr/bin/perl "-MExtUtils::Command::MM"
> >> >> >> "-MTest::Harness" "-e" "undef *Test::Harness::Switches;
> >> >> test_harness(0,
> >> >> >> 'blib/lib', 'blib/arch')" t/*.t
> >> >> >> t/Text-SenseClusters.t .. ok
> >> >> >> All tests successful.
> >> >> >> Files=1, Tests=1,  0 wallclock secs ( 0.01 usr  0.00 sys +  0.01
> >> cusr
> >> >> >> 0.00 csys =  0.02 CPU)
> >> >> >> Result: PASS
> >> >> >>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
> >> >> >> Tests succeeded but one dependency not OK (PDL)
> >> >> >>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
> >> >> >>   [dependencies] -- NA
> >> >> >> Running make install
> >> >> >>   make test had returned bad status, won't install without force
> >> >> >> Running install for module 'Module::Compile'
> >> >> >> Running make install
> >> >> >>   make test had returned bad status, won't install without force
> >> >> >> Running make for C/CH/CHM/PDL-2.007.tar.gz
> >> >> >>   Has already been unwrapped into directory
> >> >> >> /usr1/jchiu1/.cpan/build/PDL-2.007-M4Shkn
> >> >> >> Warning: Prerequisite 'Module::Compile => 0.23' for
> >> >> >> 'CHM/PDL-2.007.tar.gz'
> >> >> >> failed when processing 'INGY/Module-Compile-0.35.tar.gz' with
> >> >> 'make_test
> >> >> >> => NO'. Continuing, but chances to succeed are limited.
> >> >> >>   Has already been made
> >> >> >> Running make test
> >> >> >>   Has already been tested within this command
> >> >> >> Running make install
> >> >> >>   make test had returned bad status, won't install without force
> >> >> >>
> >> >> >> So I try to manually install each of the component, and it still
> >> >> shows
> >> >> >> the
> >> >> >> same error. (Seems like the make install step just can't work as
> >> it
> >> >> >> should) Does anyone know how to fix that? Thank you for reading
> >> this
> >> >> >> e-mail.
> >> >> >>
> >> >> >> Justin
> >> >> >>
> >> >> >>
> >> >> >>
> >> >> >>
> >> >> >>
> >> >> >>
> >> >>
> >>
> ------------------------------------------------------------------------------
> >> >> >> Dive into the World of Parallel Programming The Go Parallel
> >> Website,
> >> >> >> sponsored
> >> >> >> by Intel and developed in partnership with Slashdot Media, is your
> >> >> hub
> >> >> >> for
> >> >> >> all
> >> >> >> things parallel software development, from weekly thought
> >> leadership
> >> >> >> blogs
> >> >> >> to
> >> >> >> news, videos, case studies, tutorials and more. Take a look and
> >> join
> >> >> the
> >> >> >> conversation now. http://goparallel.sourceforge.net/
> >> >> >> _______________________________________________
> >> >> >> senseclusters-users mailing list
> >> >> >> sen...@li...
> >> >> >> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >> >> >>
> >> >> >
> >> >>
> >>
> ------------------------------------------------------------------------------
> >> >> > Dive into the World of Parallel Programming The Go Parallel
> >> Website,
> >> >> > sponsored
> >> >> > by Intel and developed in partnership with Slashdot Media, is your
> >> hub
> >> >> for
> >> >> > all
> >> >> > things parallel software development, from weekly thought
> >> leadership
> >> >> blogs
> >> >> > to
> >> >> > news, videos, case studies, tutorials and more. Take a look and
> >> join
> >> >> the
> >> >> > conversation now.
> >> >> >
> >> >>
> >>
> http://goparallel.sourceforge.net/_______________________________________________
> >> >> > senseclusters-users mailing list
> >> >> > sen...@li...
> >> >> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >> >> >
> >> >>
> >> >>
> >> >>
> >> >>
> >> >>
> >>
> ------------------------------------------------------------------------------
> >> >> Dive into the World of Parallel Programming The Go Parallel Website,
> >> >> sponsored
> >> >> by Intel and developed in partnership with Slashdot Media, is your
> >> hub
> >> >> for
> >> >> all
> >> >> things parallel software development, from weekly thought leadership
> >> >> blogs
> >> >> to
> >> >> news, videos, case studies, tutorials and more. Take a look and join
> >> the
> >> >> conversation now. http://goparallel.sourceforge.net/
> >> >> _______________________________________________
> >> >> senseclusters-users mailing list
> >> >> sen...@li...
> >> >> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >> >>
> >> >
> >>
> ------------------------------------------------------------------------------
> >> > Dive into the World of Parallel Programming The Go Parallel Website,
> >> > sponsored
> >> > by Intel and developed in partnership with Slashdot Media, is your hub
> >> for
> >> > all
> >> > things parallel software development, from weekly thought leadership
> >> blogs
> >> > to
> >> > news, videos, case studies, tutorials and more. Take a look and join
> >> the
> >> > conversation now.
> >> >
> >>
> http://goparallel.sourceforge.net/_______________________________________________
> >> > senseclusters-users mailing list
> >> > sen...@li...
> >> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >> >
> >>
> >>
> >>
> >>
> >>
> ------------------------------------------------------------------------------
> >> Dive into the World of Parallel Programming The Go Parallel Website,
> >> sponsored
> >> by Intel and developed in partnership with Slashdot Media, is your hub
> >> for
> >> all
> >> things parallel software development, from weekly thought leadership
> >> blogs
> >> to
> >> news, videos, case studies, tutorials and more. Take a look and join the
> >> conversation now. http://goparallel.sourceforge.net/
> >> _______________________________________________
> >> senseclusters-users mailing list
> >> sen...@li...
> >> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >>
> >
> ------------------------------------------------------------------------------
> > Dive into the World of Parallel Programming The Go Parallel Website,
> > sponsored
> > by Intel and developed in partnership with Slashdot Media, is your hub
> for
> > all
> > things parallel software development, from weekly thought leadership
> blogs
> > to
> > news, videos, case studies, tutorials and more. Take a look and join the
> > conversation now.
> >
> http://goparallel.sourceforge.net/_______________________________________________
> > senseclusters-users mailing list
> > sen...@li...
> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >
>
>
>
>
> ------------------------------------------------------------------------------
> Dive into the World of Parallel Programming The Go Parallel Website,
> sponsored
> by Intel and developed in partnership with Slashdot Media, is your hub for
> all
> things parallel software development, from weekly thought leadership blogs
> to
> news, videos, case studies, tutorials and more. Take a look and join the
> conversation now. http://goparallel.sourceforge.net/
> _______________________________________________
> senseclusters-users mailing list
> sen...@li...
> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>
>
>
>
>
> -----------------------------------------
>
>
> ------------------------------------------------------------------------------
> Dive into the World of Parallel Programming The Go Parallel Website,
> sponsored
> by Intel and developed in partnership with Slashdot Media, is your hub for
> all
> things parallel software development, from weekly thought leadership blogs
> to
> news, videos, case studies, tutorials and more. Take a look and join the
> conversation now. http://goparallel.sourceforge.net/
> _______________________________________________
> senseclusters-users mailing list
> sen...@li...
> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>
>

[Senseclusters-users] Fwd: Re: Senseclusters installation problems

[Alfredo M. G. <alf...@wo...>]

Resending as I sent this from a new email address that needed to be 
registered in the mailing list.


Sorry to jump in here. Installing PDL on Ubuntu should be very straight 
forward from the command line: 

sudo apt-get install pdl pgplot5 libpgplot-perl

This *should* also install other PDL dependencies. 

More info on http://pdl.perl.org/?page=install

Thanks,
Alfredo

On Monday 16 March 2015 04:41:40 Ted Pedersen wrote:


This is something you do from the command line. Are you using CPAN to 
install the modules? If so, then what you can do is


cpan
> force install PDL


So these are two commands you run from the command line (in sudo 
mode).


I hope this helps, and that it works!


Good luck,
Ted


On Sun, Mar 15, 2015 at 3:00 PM, <jc...@an...[1]> wrote:


Hi,

Sorry I am not very familiar with perl, which file should I modify to addthese 
lines? Or are these the command that I should type in my shell? Ifyou can 
provide more detail about how to fix this PDL issue I will bereally 
appreciated. Thanks!



_j...@an..._> wrote:>>> Hi,>>>> After I install F77 and 
ExtUtils:F77, the error messages are definitely>> different now. Yet while 
installing PDL, at the end it still shows>>>> ****>>         Cannot find Proj 
library, libproj.a.    Please add the correct>> library path to Makefile.PL or 
install Proj.     Cannot find Proj>> header file, proj_api.h.       Please add 
the correct library path>> to Makefile.PL or install Proj. Skipping build of 
PDL::GIS::Proj.>> ****>> make[3]: Leaving directory>> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'>> make[3]: 
Entering directory>> `/usr1/jchiu1/.cpan/build/PDL-2.007-
ifLc9Q/Lib/GIS/Proj'>> ****>>         Cannot find Proj library, libproj.a.    
Please add the correct>> library path to Makefile.PL or install Proj.    
 Cannot find Proj>> header file, proj_api.h.       Please add the correct 
library path>> to Makefile.PL or install Proj. Skipping build of 
PDL::GIS::Proj.>> ****>> make[3]: Leaving directory>> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'>> make[2]: Leaving 
directory>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS'>> make[2]: 
Entering directory>> `/usr1/jchiu1/.cpan/build/PDL-2.007-
ifLc9Q/Lib/Transform'>> make[3]: Entering directory>> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'>> 
make[3]: Leaving directory>> `/usr1/jchiu1/.cpan/build/PDL-2.007-
ifLc9Q/Lib/Transform/Cartography'>> make[3]: Entering directory>> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'>> ****>>    
Will skip build of PDL::Transform::Proj4 on this system>> ****>> make[3]: 
Leaving directory>> `/usr1/jchiu1/.cpan/build/PDL-2.007-
ifLc9Q/Lib/Transform/Proj4'>> make[3]: Entering directory>> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'>> No 
tests defined for PDL::Transform::Cartography extension.>> make[3]: 
Leaving directory>> `/usr1/jchiu1/.cpan/build/PDL-2.007-
ifLc9Q/Lib/Transform/Cartography'>> make[3]: Entering directory>> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'>> ****>>    
Will skip build of PDL::Transform::Proj4 on this system>> ****>> make[3]: 
Leaving directory>> `/usr1/jchiu1/.cpan/build/PDL-2.007-
ifLc9Q/Lib/Transform/Proj4'>> make[2]: Leaving directory>> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform'>> make[2]: 
Entering directory>> `/usr1/jchiu1/.cpan/build/PDL-2.007-
ifLc9Q/Lib/Minuit'>> No tests defined for PDL::Minuit extension.>> make[2]: 
Leaving directory>> `/usr1/jchiu1/.cpan/build/PDL-2.007-
ifLc9Q/Lib/Minuit'>> make[2]: Entering directory>> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Compression'>> No tests 
defined for PDL::Compression extension.>> make[2]: Leaving directory>> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Compression'>> make[1]: 
Leaving directory>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib'>> 
make[1]: Entering directory>> `/usr1/jchiu1/.cpan/build/PDL-2.007-
ifLc9Q/Perldl2'>> make[2]: Entering directory>> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'>> make[2]: 
Leaving directory>> `/usr1/jchiu1/.cpan/build/PDL-2.007-
ifLc9Q/Perldl2/Profile'>> make[2]: Entering directory>> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'>> make[2]: 
Leaving directory>> `/usr1/jchiu1/.cpan/build/PDL-2.007-
ifLc9Q/Perldl2/Plugin'>> /usr/bin/perl -MPod::Select -e "podselect('pdl2');" > 
pdl2.pod>> Skip ../blib/lib/PDL/Perldl2/Script.pm (unchanged)>> Skip 
../blib/lib/PDL/pdl2.pod (unchanged)>> make[2]: Entering directory>> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'>> No tests 
defined for PDL::Perldl2::Profile extension.>> make[2]: Leaving directory>> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'>> make[2]: 
Entering directory>> `/usr1/jchiu1/.cpan/build/PDL-2.007-
ifLc9Q/Perldl2/Plugin'>> No tests defined for PDL::Perldl2::Plugin 
extension.>> make[2]: Leaving directory>> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'>> make[1]: 
Leaving directory>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2'>>  
 CHM/PDL-2.007.tar.gz>> Tests succeeded but one dependency not OK 
(Module::Compile)>>   CHM/PDL-2.007.tar.gz>>   [dependencies] -- NA>> 
Running make install>>   make test had returned bad status, won't install 
without force>>>> It seems like there is some Proj4 stuff missing?  I 
wonder is there any>> other toolkit I need to install.>>>> Justin>>>> > 
It looks like this has to do with ExtUtils::F77. Do you have a fortran>> > 
compiler installed? :) If not, go ahead and install one (usually the>> 
name>> > includes f77). Then install ExtUtils::F77 individually, and then 
try>> PDL>> > again. This is a PDL dependency issue and so doesn't 
really have much>> to>> > do>> > with SenseClusters itself, but it's 
something I've run into from time>> to>> > time. Hopefully this gets all 
the dependencies installed so that>> > SenseClusters can then be re-
installed.>> >>> > Let us know how it goes.>> >>> > Good luck,>> > 
Ted>> >>> > On Fri, Mar 13, 2015 at 8:56 PM, 
<_j...@an..._> wrote:>> >>> >> Hi,>> >>>> >> When I 
directly use the command "sudo perl -MCPAN -e 'install PDL' ;">> to>> >> 
install PDL, the message shows up>> >>>> >> make[3]: Leaving 
directory>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/GIS/Proj'>> 
>> make[2]: Leaving directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/GIS'>> >> make[2]: 
Entering directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform'>> >> make[3]: 
Entering directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'>> 
>> make[3]: Leaving directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'>> 
>> make[3]: Entering directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'>> >> 
****>> >>    Will skip build of PDL::Transform::Proj4 on this system>> >> 
****>> >> make[3]: Leaving directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'>> >> 
make[3]: Entering directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'>> 
>> No tests defined for PDL::Transform::Cartography extension.>> >> 
make[3]: Leaving directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'>> 
>> make[3]: Entering directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'>> >> 
****>> >>    Will skip build of PDL::Transform::Proj4 on this system>> >> 
****>> >> make[3]: Leaving directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'>> >> 
make[2]: Leaving directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform'>> >> make[2]: 
Entering directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Minuit'>> >> ****>> >> 
Can't locate ExtUtils/F77.pm in @INC (@INC contains:>> >> 
/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/inc /etc/perl>> >> 
/usr0/local/lib/perl/5.14.2 /usr0/local/share/perl/5.14.2>> /usr/lib/perl5>> 
>> /usr/share/perl5 /usr/lib/perl/5.14.2 /usr/share/perl/5.14.2>> >> 
/usr/local/lib/site_perl /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p>> >> 
/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib .) at (eval 250) line>> >> 
2.BEGIN failed--compilation aborted at (eval 250) line 2.>> >> 
ExtUtils::F77>> >> module not found. Ought not build PDL::Minuit>> >> 
****>> >> make[2]: Leaving directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Minuit'>> >> make[2]: 
Entering directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Compression'>> >> No 
tests defined for PDL::Compression extension.>> >> make[2]: Leaving 
directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Compression'>> >> 
make[1]: Leaving directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib'>> >> make[1]: Entering 
directory>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2'>> >> 
make[2]: Entering directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'>> >> make[2]: 
Leaving directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'>> >> make[2]: 
Entering directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'>> >> make[2]: 
Leaving directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'>> >> 
/usr/bin/perl -MPod::Select -e "podselect('pdl2');" > pdl2.pod>> >> Skip 
../blib/lib/PDL/Perldl2/Script.pm (unchanged)>> >> Skip 
../blib/lib/PDL/pdl2.pod (unchanged)>> >> make[2]: Entering directory>> 
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'>> >> No 
tests defined for PDL::Perldl2::Profile extension.>> >> make[2]: Leaving 
directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'>> >> make[2]: 
Entering directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'>> >> No tests 
defined for PDL::Perldl2::Plugin extension.>> >> make[2]: Leaving 
directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'>> >> make[1]: 
Leaving directory>> >> 
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2'>> >>  
 CHM/PDL-2.007.tar.gz>> >> Tests succeeded but one dependency not OK 
(Module::Compile)>> >>   CHM/PDL-2.007.tar.gz>> >>   [dependencies] -- 
NA>> >> Running make install>> >>   make test had returned bad 
status, won't install without force>> >>>> >> It seems like a similar 
errors. Actually I think most of the required>> >> component shows up 
similar errors. Thanks.>> >>>> >> Justin>> >>>> >> > It looks like PDL 
failed to install. Did you try and install PDL>> >> > separately? If so, what 
kind of errors did you get with that?>> >> >>> >> > Thanks!>> >> > 
Ted>> >> >>> >> > On Fri, Mar 13, 2015 at 3:42 PM, 
<_j...@an..._> wrote:>> >> >>> >> >> Hi All,>> >> 
>>>> >> >> Right now I am trying to install Senseclusters on my 
ubuntu>> machine.>> >> I>> >> >> do>> >> >> have sudo account, 
so I just use the "perl -MCPAN -e 'install>> >> >> 
Bundle::Text::SenseClusters';" command as the documentation>> >> 
mentioned.>> >> >>>> >> >> However, after the process is completed, 
there is no perl script>> >> >> installed>> >> >> to my /usr/local/bin 
folder. At the end of the installation, it>> says>> >> >>>> >> >> 
Running make test>> >> >> PERL_DL_NONLAZY=1 /usr/bin/perl "-
MExtUtils::Command::MM">> >> >> "-MTest::Harness" "-e" "undef 
*Test::Harness::Switches;>> >> test_harness(0,>> >> >> 'blib/lib', 
'blib/arch')" t/*.t>> >> >> t/Text-SenseClusters.t .. ok>> >> >> All tests 
successful.>> >> >> Files=1, Tests=1,  0 wallclock secs ( 0.01 usr  0.00 
sys +  0.01>> cusr>> >> >> 0.00 csys =  0.02 CPU)>> >> >> Result: 
PASS>> >> >>   TPEDERSE/Text-SenseClusters-1.03.tar.gz>> >> >> Tests 
succeeded but one dependency not OK (PDL)>> >> >>   TPEDERSE/Text-
SenseClusters-1.03.tar.gz>> >> >>   [dependencies] -- NA>> >> >> 
Running make install>> >> >>   make test had returned bad status, won't 
install without force>> >> >> Running install for module 
'Module::Compile'>> >> >> Running make install>> >> >>   make test 
had returned bad status, won't install without force>> >> >> Running 
make for C/CH/CHM/PDL-2.007.tar.gz>> >> >>   Has already been 
unwrapped into directory>> >> >> /usr1/jchiu1/.cpan/build/PDL-2.007-
M4Shkn>> >> >> Warning: Prerequisite 'Module::Compile => 0.23' for>> 
>> >> 'CHM/PDL-2.007.tar.gz'>> >> >> failed when processing 
'INGY/Module-Compile-0.35.tar.gz' with>> >> 'make_test>> >> >> => NO'. 
Continuing, but chances to succeed are limited.>> >> >>   Has already 
been made>> >> >> Running make test>> >> >>   Has already been 
tested within this command>> >> >> Running make install>> >> >>  
 make test had returned bad status, won't install without force>> >> 
>>>> >> >> So I try to manually install each of the component, and it 
still>> >> shows>> >> >> the>> >> >> same error. (Seems like the 
make install step just can't work as>> it>> >> >> should) Does anyone 
know how to fix that? Thank you for reading>> this>> >> >> e-mail.>> 
>> >>>> >> >> Justin>> >> >>>> >> >>>> >> >>>> >> >>>> >> 
>>>> >> >>>> >>>> ------------------------------------------------------------------------------
>> >> >> Dive into the World of Parallel Programming The Go Parallel>> 
Website,>> >> >> sponsored>> >> >> by Intel and developed in 
partnership with Slashdot Media, is your>> >> hub>> >> >> for>> >> 
>> all>> >> >> things parallel software development, from weekly 
thought>> leadership>> >> >> blogs>> >> >> to>> >> >> news, 
videos, case studies, tutorials and more. Take a look and>> join>> >> 
the>> >> >> conversation now. http://goparallel.sourceforge.net/[2]

Re: [Senseclusters-users] Senseclusters installation problems

[Ted P. <dul...@gm...>]

This is something you do from the command line. Are you using CPAN to
install the modules? If so, then what you can do is

cpan
> force install PDL

So these are two commands you run from the command line (in sudo mode).

I hope this helps, and that it works!

Good luck,
Ted

On Sun, Mar 15, 2015 at 3:00 PM, <jc...@an...> wrote:

> Hi,
>
> Sorry I am not very familiar with perl, which file should I modify to add
> these lines? Or are these the command that I should type in my shell? If
> you can provide more detail about how to fix this PDL issue I will be
> really appreciated. Thanks!
>
> Justin
>
> > It looks like PDL still has some missing dependencies, although I think
> > most of what SenseClusters needs doesn't require that. So, I think I
> might
> > suggest trying to force the install
> >
> > from cpan:
> >
> >> force install PDL
> >
> > this will override these errors and give you a partial install, but I
> > think
> > that will be sufficient for SenseClusters.
> >
> > Otherwise, yes, you will end up chasing down the Proj4 dependency, and
> > anything that might follow from that. PDL is sometimes a messy install,
> > although not always...
> >
> > I hope this helps.
> > Ted
> >
> > On Sat, Mar 14, 2015 at 5:43 PM, <jc...@an...> wrote:
> >
> >> Hi,
> >>
> >> After I install F77 and ExtUtils:F77, the error messages are definitely
> >> different now. Yet while installing PDL, at the end it still shows
> >>
> >> ****
> >>         Cannot find Proj library, libproj.a.    Please add the correct
> >> library path to Makefile.PL or install Proj.     Cannot find Proj
> >> header file, proj_api.h.       Please add the correct library path
> >> to Makefile.PL or install Proj. Skipping build of PDL::GIS::Proj.
> >> ****
> >> make[3]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
> >> make[3]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
> >> ****
> >>         Cannot find Proj library, libproj.a.    Please add the correct
> >> library path to Makefile.PL or install Proj.     Cannot find Proj
> >> header file, proj_api.h.       Please add the correct library path
> >> to Makefile.PL or install Proj. Skipping build of PDL::GIS::Proj.
> >> ****
> >> make[3]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS'
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform'
> >> make[3]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
> >> make[3]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
> >> make[3]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
> >> ****
> >>    Will skip build of PDL::Transform::Proj4 on this system
> >> ****
> >> make[3]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
> >> make[3]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
> >> No tests defined for PDL::Transform::Cartography extension.
> >> make[3]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
> >> make[3]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
> >> ****
> >>    Will skip build of PDL::Transform::Proj4 on this system
> >> ****
> >> make[3]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform'
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Minuit'
> >> No tests defined for PDL::Minuit extension.
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Minuit'
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Compression'
> >> No tests defined for PDL::Compression extension.
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Compression'
> >> make[1]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib'
> >> make[1]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2'
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
> >> /usr/bin/perl -MPod::Select -e "podselect('pdl2');" > pdl2.pod
> >> Skip ../blib/lib/PDL/Perldl2/Script.pm (unchanged)
> >> Skip ../blib/lib/PDL/pdl2.pod (unchanged)
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
> >> No tests defined for PDL::Perldl2::Profile extension.
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
> >> No tests defined for PDL::Perldl2::Plugin extension.
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
> >> make[1]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2'
> >>   CHM/PDL-2.007.tar.gz
> >> Tests succeeded but one dependency not OK (Module::Compile)
> >>   CHM/PDL-2.007.tar.gz
> >>   [dependencies] -- NA
> >> Running make install
> >>   make test had returned bad status, won't install without force
> >>
> >> It seems like there is some Proj4 stuff missing?  I wonder is there any
> >> other toolkit I need to install.
> >>
> >> Justin
> >>
> >> > It looks like this has to do with ExtUtils::F77. Do you have a fortran
> >> > compiler installed? :) If not, go ahead and install one (usually the
> >> name
> >> > includes f77). Then install ExtUtils::F77 individually, and then try
> >> PDL
> >> > again. This is a PDL dependency issue and so doesn't really have much
> >> to
> >> > do
> >> > with SenseClusters itself, but it's something I've run into from time
> >> to
> >> > time. Hopefully this gets all the dependencies installed so that
> >> > SenseClusters can then be re-installed.
> >> >
> >> > Let us know how it goes.
> >> >
> >> > Good luck,
> >> > Ted
> >> >
> >> > On Fri, Mar 13, 2015 at 8:56 PM, <jc...@an...> wrote:
> >> >
> >> >> Hi,
> >> >>
> >> >> When I directly use the command "sudo perl -MCPAN -e 'install PDL' ;"
> >> to
> >> >> install PDL, the message shows up
> >> >>
> >> >> make[3]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/GIS/Proj'
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/GIS'
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform'
> >> >> make[3]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
> >> >> make[3]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
> >> >> make[3]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
> >> >> ****
> >> >>    Will skip build of PDL::Transform::Proj4 on this system
> >> >> ****
> >> >> make[3]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
> >> >> make[3]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
> >> >> No tests defined for PDL::Transform::Cartography extension.
> >> >> make[3]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
> >> >> make[3]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
> >> >> ****
> >> >>    Will skip build of PDL::Transform::Proj4 on this system
> >> >> ****
> >> >> make[3]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform'
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Minuit'
> >> >> ****
> >> >> Can't locate ExtUtils/F77.pm in @INC (@INC contains:
> >> >> /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/inc /etc/perl
> >> >> /usr0/local/lib/perl/5.14.2 /usr0/local/share/perl/5.14.2
> >> /usr/lib/perl5
> >> >> /usr/share/perl5 /usr/lib/perl/5.14.2 /usr/share/perl/5.14.2
> >> >> /usr/local/lib/site_perl /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p
> >> >> /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib .) at (eval 250) line
> >> >> 2.BEGIN failed--compilation aborted at (eval 250) line 2.
> >> >> ExtUtils::F77
> >> >> module not found. Ought not build PDL::Minuit
> >> >> ****
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Minuit'
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Compression'
> >> >> No tests defined for PDL::Compression extension.
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Compression'
> >> >> make[1]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib'
> >> >> make[1]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2'
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
> >> >> /usr/bin/perl -MPod::Select -e "podselect('pdl2');" > pdl2.pod
> >> >> Skip ../blib/lib/PDL/Perldl2/Script.pm (unchanged)
> >> >> Skip ../blib/lib/PDL/pdl2.pod (unchanged)
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
> >> >> No tests defined for PDL::Perldl2::Profile extension.
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
> >> >> make[2]: Entering directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
> >> >> No tests defined for PDL::Perldl2::Plugin extension.
> >> >> make[2]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
> >> >> make[1]: Leaving directory
> >> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2'
> >> >>   CHM/PDL-2.007.tar.gz
> >> >> Tests succeeded but one dependency not OK (Module::Compile)
> >> >>   CHM/PDL-2.007.tar.gz
> >> >>   [dependencies] -- NA
> >> >> Running make install
> >> >>   make test had returned bad status, won't install without force
> >> >>
> >> >> It seems like a similar errors. Actually I think most of the required
> >> >> component shows up similar errors. Thanks.
> >> >>
> >> >> Justin
> >> >>
> >> >> > It looks like PDL failed to install. Did you try and install PDL
> >> >> > separately? If so, what kind of errors did you get with that?
> >> >> >
> >> >> > Thanks!
> >> >> > Ted
> >> >> >
> >> >> > On Fri, Mar 13, 2015 at 3:42 PM, <jc...@an...> wrote:
> >> >> >
> >> >> >> Hi All,
> >> >> >>
> >> >> >> Right now I am trying to install Senseclusters on my ubuntu
> >> machine.
> >> >> I
> >> >> >> do
> >> >> >> have sudo account, so I just use the "perl -MCPAN -e 'install
> >> >> >> Bundle::Text::SenseClusters';" command as the documentation
> >> >> mentioned.
> >> >> >>
> >> >> >> However, after the process is completed, there is no perl script
> >> >> >> installed
> >> >> >> to my /usr/local/bin folder. At the end of the installation, it
> >> says
> >> >> >>
> >> >> >> Running make test
> >> >> >> PERL_DL_NONLAZY=1 /usr/bin/perl "-MExtUtils::Command::MM"
> >> >> >> "-MTest::Harness" "-e" "undef *Test::Harness::Switches;
> >> >> test_harness(0,
> >> >> >> 'blib/lib', 'blib/arch')" t/*.t
> >> >> >> t/Text-SenseClusters.t .. ok
> >> >> >> All tests successful.
> >> >> >> Files=1, Tests=1,  0 wallclock secs ( 0.01 usr  0.00 sys +  0.01
> >> cusr
> >> >> >> 0.00 csys =  0.02 CPU)
> >> >> >> Result: PASS
> >> >> >>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
> >> >> >> Tests succeeded but one dependency not OK (PDL)
> >> >> >>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
> >> >> >>   [dependencies] -- NA
> >> >> >> Running make install
> >> >> >>   make test had returned bad status, won't install without force
> >> >> >> Running install for module 'Module::Compile'
> >> >> >> Running make install
> >> >> >>   make test had returned bad status, won't install without force
> >> >> >> Running make for C/CH/CHM/PDL-2.007.tar.gz
> >> >> >>   Has already been unwrapped into directory
> >> >> >> /usr1/jchiu1/.cpan/build/PDL-2.007-M4Shkn
> >> >> >> Warning: Prerequisite 'Module::Compile => 0.23' for
> >> >> >> 'CHM/PDL-2.007.tar.gz'
> >> >> >> failed when processing 'INGY/Module-Compile-0.35.tar.gz' with
> >> >> 'make_test
> >> >> >> => NO'. Continuing, but chances to succeed are limited.
> >> >> >>   Has already been made
> >> >> >> Running make test
> >> >> >>   Has already been tested within this command
> >> >> >> Running make install
> >> >> >>   make test had returned bad status, won't install without force
> >> >> >>
> >> >> >> So I try to manually install each of the component, and it still
> >> >> shows
> >> >> >> the
> >> >> >> same error. (Seems like the make install step just can't work as
> >> it
> >> >> >> should) Does anyone know how to fix that? Thank you for reading
> >> this
> >> >> >> e-mail.
> >> >> >>
> >> >> >> Justin
> >> >> >>
> >> >> >>
> >> >> >>
> >> >> >>
> >> >> >>
> >> >> >>
> >> >>
> >>
> ------------------------------------------------------------------------------
> >> >> >> Dive into the World of Parallel Programming The Go Parallel
> >> Website,
> >> >> >> sponsored
> >> >> >> by Intel and developed in partnership with Slashdot Media, is your
> >> >> hub
> >> >> >> for
> >> >> >> all
> >> >> >> things parallel software development, from weekly thought
> >> leadership
> >> >> >> blogs
> >> >> >> to
> >> >> >> news, videos, case studies, tutorials and more. Take a look and
> >> join
> >> >> the
> >> >> >> conversation now. http://goparallel.sourceforge.net/
> >> >> >> _______________________________________________
> >> >> >> senseclusters-users mailing list
> >> >> >> sen...@li...
> >> >> >> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >> >> >>
> >> >> >
> >> >>
> >>
> ------------------------------------------------------------------------------
> >> >> > Dive into the World of Parallel Programming The Go Parallel
> >> Website,
> >> >> > sponsored
> >> >> > by Intel and developed in partnership with Slashdot Media, is your
> >> hub
> >> >> for
> >> >> > all
> >> >> > things parallel software development, from weekly thought
> >> leadership
> >> >> blogs
> >> >> > to
> >> >> > news, videos, case studies, tutorials and more. Take a look and
> >> join
> >> >> the
> >> >> > conversation now.
> >> >> >
> >> >>
> >>
> http://goparallel.sourceforge.net/_______________________________________________
> >> >> > senseclusters-users mailing list
> >> >> > sen...@li...
> >> >> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >> >> >
> >> >>
> >> >>
> >> >>
> >> >>
> >> >>
> >>
> ------------------------------------------------------------------------------
> >> >> Dive into the World of Parallel Programming The Go Parallel Website,
> >> >> sponsored
> >> >> by Intel and developed in partnership with Slashdot Media, is your
> >> hub
> >> >> for
> >> >> all
> >> >> things parallel software development, from weekly thought leadership
> >> >> blogs
> >> >> to
> >> >> news, videos, case studies, tutorials and more. Take a look and join
> >> the
> >> >> conversation now. http://goparallel.sourceforge.net/
> >> >> _______________________________________________
> >> >> senseclusters-users mailing list
> >> >> sen...@li...
> >> >> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >> >>
> >> >
> >>
> ------------------------------------------------------------------------------
> >> > Dive into the World of Parallel Programming The Go Parallel Website,
> >> > sponsored
> >> > by Intel and developed in partnership with Slashdot Media, is your hub
> >> for
> >> > all
> >> > things parallel software development, from weekly thought leadership
> >> blogs
> >> > to
> >> > news, videos, case studies, tutorials and more. Take a look and join
> >> the
> >> > conversation now.
> >> >
> >>
> http://goparallel.sourceforge.net/_______________________________________________
> >> > senseclusters-users mailing list
> >> > sen...@li...
> >> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >> >
> >>
> >>
> >>
> >>
> >>
> ------------------------------------------------------------------------------
> >> Dive into the World of Parallel Programming The Go Parallel Website,
> >> sponsored
> >> by Intel and developed in partnership with Slashdot Media, is your hub
> >> for
> >> all
> >> things parallel software development, from weekly thought leadership
> >> blogs
> >> to
> >> news, videos, case studies, tutorials and more. Take a look and join the
> >> conversation now. http://goparallel.sourceforge.net/
> >> _______________________________________________
> >> senseclusters-users mailing list
> >> sen...@li...
> >> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >>
> >
> ------------------------------------------------------------------------------
> > Dive into the World of Parallel Programming The Go Parallel Website,
> > sponsored
> > by Intel and developed in partnership with Slashdot Media, is your hub
> for
> > all
> > things parallel software development, from weekly thought leadership
> blogs
> > to
> > news, videos, case studies, tutorials and more. Take a look and join the
> > conversation now.
> >
> http://goparallel.sourceforge.net/_______________________________________________
> > senseclusters-users mailing list
> > sen...@li...
> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >
>
>
>
>
> ------------------------------------------------------------------------------
> Dive into the World of Parallel Programming The Go Parallel Website,
> sponsored
> by Intel and developed in partnership with Slashdot Media, is your hub for
> all
> things parallel software development, from weekly thought leadership blogs
> to
> news, videos, case studies, tutorials and more. Take a look and join the
> conversation now. http://goparallel.sourceforge.net/
> _______________________________________________
> senseclusters-users mailing list
> sen...@li...
> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>

Re: [Senseclusters-users] Senseclusters installation problems

[<jc...@an...>]

Hi,

Sorry I am not very familiar with perl, which file should I modify to add
these lines? Or are these the command that I should type in my shell? If
you can provide more detail about how to fix this PDL issue I will be
really appreciated. Thanks!

Justin

> It looks like PDL still has some missing dependencies, although I think
> most of what SenseClusters needs doesn't require that. So, I think I might
> suggest trying to force the install
>
> from cpan:
>
>> force install PDL
>
> this will override these errors and give you a partial install, but I
> think
> that will be sufficient for SenseClusters.
>
> Otherwise, yes, you will end up chasing down the Proj4 dependency, and
> anything that might follow from that. PDL is sometimes a messy install,
> although not always...
>
> I hope this helps.
> Ted
>
> On Sat, Mar 14, 2015 at 5:43 PM, <jc...@an...> wrote:
>
>> Hi,
>>
>> After I install F77 and ExtUtils:F77, the error messages are definitely
>> different now. Yet while installing PDL, at the end it still shows
>>
>> ****
>>         Cannot find Proj library, libproj.a.    Please add the correct
>> library path to Makefile.PL or install Proj.     Cannot find Proj
>> header file, proj_api.h.       Please add the correct library path
>> to Makefile.PL or install Proj. Skipping build of PDL::GIS::Proj.
>> ****
>> make[3]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
>> make[3]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
>> ****
>>         Cannot find Proj library, libproj.a.    Please add the correct
>> library path to Makefile.PL or install Proj.     Cannot find Proj
>> header file, proj_api.h.       Please add the correct library path
>> to Makefile.PL or install Proj. Skipping build of PDL::GIS::Proj.
>> ****
>> make[3]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
>> make[2]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS'
>> make[2]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform'
>> make[3]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
>> make[3]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
>> make[3]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
>> ****
>>    Will skip build of PDL::Transform::Proj4 on this system
>> ****
>> make[3]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
>> make[3]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
>> No tests defined for PDL::Transform::Cartography extension.
>> make[3]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
>> make[3]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
>> ****
>>    Will skip build of PDL::Transform::Proj4 on this system
>> ****
>> make[3]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
>> make[2]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform'
>> make[2]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Minuit'
>> No tests defined for PDL::Minuit extension.
>> make[2]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Minuit'
>> make[2]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Compression'
>> No tests defined for PDL::Compression extension.
>> make[2]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Compression'
>> make[1]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib'
>> make[1]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2'
>> make[2]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
>> make[2]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
>> make[2]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
>> make[2]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
>> /usr/bin/perl -MPod::Select -e "podselect('pdl2');" > pdl2.pod
>> Skip ../blib/lib/PDL/Perldl2/Script.pm (unchanged)
>> Skip ../blib/lib/PDL/pdl2.pod (unchanged)
>> make[2]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
>> No tests defined for PDL::Perldl2::Profile extension.
>> make[2]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
>> make[2]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
>> No tests defined for PDL::Perldl2::Plugin extension.
>> make[2]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
>> make[1]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2'
>>   CHM/PDL-2.007.tar.gz
>> Tests succeeded but one dependency not OK (Module::Compile)
>>   CHM/PDL-2.007.tar.gz
>>   [dependencies] -- NA
>> Running make install
>>   make test had returned bad status, won't install without force
>>
>> It seems like there is some Proj4 stuff missing?  I wonder is there any
>> other toolkit I need to install.
>>
>> Justin
>>
>> > It looks like this has to do with ExtUtils::F77. Do you have a fortran
>> > compiler installed? :) If not, go ahead and install one (usually the
>> name
>> > includes f77). Then install ExtUtils::F77 individually, and then try
>> PDL
>> > again. This is a PDL dependency issue and so doesn't really have much
>> to
>> > do
>> > with SenseClusters itself, but it's something I've run into from time
>> to
>> > time. Hopefully this gets all the dependencies installed so that
>> > SenseClusters can then be re-installed.
>> >
>> > Let us know how it goes.
>> >
>> > Good luck,
>> > Ted
>> >
>> > On Fri, Mar 13, 2015 at 8:56 PM, <jc...@an...> wrote:
>> >
>> >> Hi,
>> >>
>> >> When I directly use the command "sudo perl -MCPAN -e 'install PDL' ;"
>> to
>> >> install PDL, the message shows up
>> >>
>> >> make[3]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/GIS/Proj'
>> >> make[2]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/GIS'
>> >> make[2]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform'
>> >> make[3]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
>> >> make[3]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
>> >> make[3]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
>> >> ****
>> >>    Will skip build of PDL::Transform::Proj4 on this system
>> >> ****
>> >> make[3]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
>> >> make[3]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
>> >> No tests defined for PDL::Transform::Cartography extension.
>> >> make[3]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
>> >> make[3]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
>> >> ****
>> >>    Will skip build of PDL::Transform::Proj4 on this system
>> >> ****
>> >> make[3]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
>> >> make[2]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform'
>> >> make[2]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Minuit'
>> >> ****
>> >> Can't locate ExtUtils/F77.pm in @INC (@INC contains:
>> >> /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/inc /etc/perl
>> >> /usr0/local/lib/perl/5.14.2 /usr0/local/share/perl/5.14.2
>> /usr/lib/perl5
>> >> /usr/share/perl5 /usr/lib/perl/5.14.2 /usr/share/perl/5.14.2
>> >> /usr/local/lib/site_perl /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p
>> >> /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib .) at (eval 250) line
>> >> 2.BEGIN failed--compilation aborted at (eval 250) line 2.
>> >> ExtUtils::F77
>> >> module not found. Ought not build PDL::Minuit
>> >> ****
>> >> make[2]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Minuit'
>> >> make[2]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Compression'
>> >> No tests defined for PDL::Compression extension.
>> >> make[2]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Compression'
>> >> make[1]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib'
>> >> make[1]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2'
>> >> make[2]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
>> >> make[2]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
>> >> make[2]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
>> >> make[2]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
>> >> /usr/bin/perl -MPod::Select -e "podselect('pdl2');" > pdl2.pod
>> >> Skip ../blib/lib/PDL/Perldl2/Script.pm (unchanged)
>> >> Skip ../blib/lib/PDL/pdl2.pod (unchanged)
>> >> make[2]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
>> >> No tests defined for PDL::Perldl2::Profile extension.
>> >> make[2]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
>> >> make[2]: Entering directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
>> >> No tests defined for PDL::Perldl2::Plugin extension.
>> >> make[2]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
>> >> make[1]: Leaving directory
>> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2'
>> >>   CHM/PDL-2.007.tar.gz
>> >> Tests succeeded but one dependency not OK (Module::Compile)
>> >>   CHM/PDL-2.007.tar.gz
>> >>   [dependencies] -- NA
>> >> Running make install
>> >>   make test had returned bad status, won't install without force
>> >>
>> >> It seems like a similar errors. Actually I think most of the required
>> >> component shows up similar errors. Thanks.
>> >>
>> >> Justin
>> >>
>> >> > It looks like PDL failed to install. Did you try and install PDL
>> >> > separately? If so, what kind of errors did you get with that?
>> >> >
>> >> > Thanks!
>> >> > Ted
>> >> >
>> >> > On Fri, Mar 13, 2015 at 3:42 PM, <jc...@an...> wrote:
>> >> >
>> >> >> Hi All,
>> >> >>
>> >> >> Right now I am trying to install Senseclusters on my ubuntu
>> machine.
>> >> I
>> >> >> do
>> >> >> have sudo account, so I just use the "perl -MCPAN -e 'install
>> >> >> Bundle::Text::SenseClusters';" command as the documentation
>> >> mentioned.
>> >> >>
>> >> >> However, after the process is completed, there is no perl script
>> >> >> installed
>> >> >> to my /usr/local/bin folder. At the end of the installation, it
>> says
>> >> >>
>> >> >> Running make test
>> >> >> PERL_DL_NONLAZY=1 /usr/bin/perl "-MExtUtils::Command::MM"
>> >> >> "-MTest::Harness" "-e" "undef *Test::Harness::Switches;
>> >> test_harness(0,
>> >> >> 'blib/lib', 'blib/arch')" t/*.t
>> >> >> t/Text-SenseClusters.t .. ok
>> >> >> All tests successful.
>> >> >> Files=1, Tests=1,  0 wallclock secs ( 0.01 usr  0.00 sys +  0.01
>> cusr
>> >> >> 0.00 csys =  0.02 CPU)
>> >> >> Result: PASS
>> >> >>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
>> >> >> Tests succeeded but one dependency not OK (PDL)
>> >> >>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
>> >> >>   [dependencies] -- NA
>> >> >> Running make install
>> >> >>   make test had returned bad status, won't install without force
>> >> >> Running install for module 'Module::Compile'
>> >> >> Running make install
>> >> >>   make test had returned bad status, won't install without force
>> >> >> Running make for C/CH/CHM/PDL-2.007.tar.gz
>> >> >>   Has already been unwrapped into directory
>> >> >> /usr1/jchiu1/.cpan/build/PDL-2.007-M4Shkn
>> >> >> Warning: Prerequisite 'Module::Compile => 0.23' for
>> >> >> 'CHM/PDL-2.007.tar.gz'
>> >> >> failed when processing 'INGY/Module-Compile-0.35.tar.gz' with
>> >> 'make_test
>> >> >> => NO'. Continuing, but chances to succeed are limited.
>> >> >>   Has already been made
>> >> >> Running make test
>> >> >>   Has already been tested within this command
>> >> >> Running make install
>> >> >>   make test had returned bad status, won't install without force
>> >> >>
>> >> >> So I try to manually install each of the component, and it still
>> >> shows
>> >> >> the
>> >> >> same error. (Seems like the make install step just can't work as
>> it
>> >> >> should) Does anyone know how to fix that? Thank you for reading
>> this
>> >> >> e-mail.
>> >> >>
>> >> >> Justin
>> >> >>
>> >> >>
>> >> >>
>> >> >>
>> >> >>
>> >> >>
>> >>
>> ------------------------------------------------------------------------------
>> >> >> Dive into the World of Parallel Programming The Go Parallel
>> Website,
>> >> >> sponsored
>> >> >> by Intel and developed in partnership with Slashdot Media, is your
>> >> hub
>> >> >> for
>> >> >> all
>> >> >> things parallel software development, from weekly thought
>> leadership
>> >> >> blogs
>> >> >> to
>> >> >> news, videos, case studies, tutorials and more. Take a look and
>> join
>> >> the
>> >> >> conversation now. http://goparallel.sourceforge.net/
>> >> >> _______________________________________________
>> >> >> senseclusters-users mailing list
>> >> >> sen...@li...
>> >> >> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>> >> >>
>> >> >
>> >>
>> ------------------------------------------------------------------------------
>> >> > Dive into the World of Parallel Programming The Go Parallel
>> Website,
>> >> > sponsored
>> >> > by Intel and developed in partnership with Slashdot Media, is your
>> hub
>> >> for
>> >> > all
>> >> > things parallel software development, from weekly thought
>> leadership
>> >> blogs
>> >> > to
>> >> > news, videos, case studies, tutorials and more. Take a look and
>> join
>> >> the
>> >> > conversation now.
>> >> >
>> >>
>> http://goparallel.sourceforge.net/_______________________________________________
>> >> > senseclusters-users mailing list
>> >> > sen...@li...
>> >> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>> >> >
>> >>
>> >>
>> >>
>> >>
>> >>
>> ------------------------------------------------------------------------------
>> >> Dive into the World of Parallel Programming The Go Parallel Website,
>> >> sponsored
>> >> by Intel and developed in partnership with Slashdot Media, is your
>> hub
>> >> for
>> >> all
>> >> things parallel software development, from weekly thought leadership
>> >> blogs
>> >> to
>> >> news, videos, case studies, tutorials and more. Take a look and join
>> the
>> >> conversation now. http://goparallel.sourceforge.net/
>> >> _______________________________________________
>> >> senseclusters-users mailing list
>> >> sen...@li...
>> >> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>> >>
>> >
>> ------------------------------------------------------------------------------
>> > Dive into the World of Parallel Programming The Go Parallel Website,
>> > sponsored
>> > by Intel and developed in partnership with Slashdot Media, is your hub
>> for
>> > all
>> > things parallel software development, from weekly thought leadership
>> blogs
>> > to
>> > news, videos, case studies, tutorials and more. Take a look and join
>> the
>> > conversation now.
>> >
>> http://goparallel.sourceforge.net/_______________________________________________
>> > senseclusters-users mailing list
>> > sen...@li...
>> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>> >
>>
>>
>>
>>
>> ------------------------------------------------------------------------------
>> Dive into the World of Parallel Programming The Go Parallel Website,
>> sponsored
>> by Intel and developed in partnership with Slashdot Media, is your hub
>> for
>> all
>> things parallel software development, from weekly thought leadership
>> blogs
>> to
>> news, videos, case studies, tutorials and more. Take a look and join the
>> conversation now. http://goparallel.sourceforge.net/
>> _______________________________________________
>> senseclusters-users mailing list
>> sen...@li...
>> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>>
> ------------------------------------------------------------------------------
> Dive into the World of Parallel Programming The Go Parallel Website,
> sponsored
> by Intel and developed in partnership with Slashdot Media, is your hub for
> all
> things parallel software development, from weekly thought leadership blogs
> to
> news, videos, case studies, tutorials and more. Take a look and join the
> conversation now.
> http://goparallel.sourceforge.net/_______________________________________________
> senseclusters-users mailing list
> sen...@li...
> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>

Re: [Senseclusters-users] Senseclusters installation problems

[Ted P. <dul...@gm...>]

It looks like PDL still has some missing dependencies, although I think
most of what SenseClusters needs doesn't require that. So, I think I might
suggest trying to force the install

from cpan:

> force install PDL

this will override these errors and give you a partial install, but I think
that will be sufficient for SenseClusters.

Otherwise, yes, you will end up chasing down the Proj4 dependency, and
anything that might follow from that. PDL is sometimes a messy install,
although not always...

I hope this helps.
Ted

On Sat, Mar 14, 2015 at 5:43 PM, <jc...@an...> wrote:

> Hi,
>
> After I install F77 and ExtUtils:F77, the error messages are definitely
> different now. Yet while installing PDL, at the end it still shows
>
> ****
>         Cannot find Proj library, libproj.a.    Please add the correct
> library path to Makefile.PL or install Proj.     Cannot find Proj
> header file, proj_api.h.       Please add the correct library path
> to Makefile.PL or install Proj. Skipping build of PDL::GIS::Proj.
> ****
> make[3]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
> make[3]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
> ****
>         Cannot find Proj library, libproj.a.    Please add the correct
> library path to Makefile.PL or install Proj.     Cannot find Proj
> header file, proj_api.h.       Please add the correct library path
> to Makefile.PL or install Proj. Skipping build of PDL::GIS::Proj.
> ****
> make[3]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
> make[2]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS'
> make[2]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform'
> make[3]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
> make[3]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
> make[3]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
> ****
>    Will skip build of PDL::Transform::Proj4 on this system
> ****
> make[3]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
> make[3]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
> No tests defined for PDL::Transform::Cartography extension.
> make[3]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
> make[3]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
> ****
>    Will skip build of PDL::Transform::Proj4 on this system
> ****
> make[3]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
> make[2]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform'
> make[2]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Minuit'
> No tests defined for PDL::Minuit extension.
> make[2]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Minuit'
> make[2]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Compression'
> No tests defined for PDL::Compression extension.
> make[2]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Compression'
> make[1]: Leaving directory `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib'
> make[1]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2'
> make[2]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
> make[2]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
> make[2]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
> make[2]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
> /usr/bin/perl -MPod::Select -e "podselect('pdl2');" > pdl2.pod
> Skip ../blib/lib/PDL/Perldl2/Script.pm (unchanged)
> Skip ../blib/lib/PDL/pdl2.pod (unchanged)
> make[2]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
> No tests defined for PDL::Perldl2::Profile extension.
> make[2]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
> make[2]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
> No tests defined for PDL::Perldl2::Plugin extension.
> make[2]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
> make[1]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2'
>   CHM/PDL-2.007.tar.gz
> Tests succeeded but one dependency not OK (Module::Compile)
>   CHM/PDL-2.007.tar.gz
>   [dependencies] -- NA
> Running make install
>   make test had returned bad status, won't install without force
>
> It seems like there is some Proj4 stuff missing?  I wonder is there any
> other toolkit I need to install.
>
> Justin
>
> > It looks like this has to do with ExtUtils::F77. Do you have a fortran
> > compiler installed? :) If not, go ahead and install one (usually the name
> > includes f77). Then install ExtUtils::F77 individually, and then try PDL
> > again. This is a PDL dependency issue and so doesn't really have much to
> > do
> > with SenseClusters itself, but it's something I've run into from time to
> > time. Hopefully this gets all the dependencies installed so that
> > SenseClusters can then be re-installed.
> >
> > Let us know how it goes.
> >
> > Good luck,
> > Ted
> >
> > On Fri, Mar 13, 2015 at 8:56 PM, <jc...@an...> wrote:
> >
> >> Hi,
> >>
> >> When I directly use the command "sudo perl -MCPAN -e 'install PDL' ;" to
> >> install PDL, the message shows up
> >>
> >> make[3]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/GIS/Proj'
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/GIS'
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform'
> >> make[3]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
> >> make[3]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
> >> make[3]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
> >> ****
> >>    Will skip build of PDL::Transform::Proj4 on this system
> >> ****
> >> make[3]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
> >> make[3]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
> >> No tests defined for PDL::Transform::Cartography extension.
> >> make[3]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
> >> make[3]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
> >> ****
> >>    Will skip build of PDL::Transform::Proj4 on this system
> >> ****
> >> make[3]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform'
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Minuit'
> >> ****
> >> Can't locate ExtUtils/F77.pm in @INC (@INC contains:
> >> /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/inc /etc/perl
> >> /usr0/local/lib/perl/5.14.2 /usr0/local/share/perl/5.14.2 /usr/lib/perl5
> >> /usr/share/perl5 /usr/lib/perl/5.14.2 /usr/share/perl/5.14.2
> >> /usr/local/lib/site_perl /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p
> >> /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib .) at (eval 250) line
> >> 2.BEGIN failed--compilation aborted at (eval 250) line 2.
> >> ExtUtils::F77
> >> module not found. Ought not build PDL::Minuit
> >> ****
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Minuit'
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Compression'
> >> No tests defined for PDL::Compression extension.
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Compression'
> >> make[1]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib'
> >> make[1]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2'
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
> >> /usr/bin/perl -MPod::Select -e "podselect('pdl2');" > pdl2.pod
> >> Skip ../blib/lib/PDL/Perldl2/Script.pm (unchanged)
> >> Skip ../blib/lib/PDL/pdl2.pod (unchanged)
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
> >> No tests defined for PDL::Perldl2::Profile extension.
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
> >> make[2]: Entering directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
> >> No tests defined for PDL::Perldl2::Plugin extension.
> >> make[2]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
> >> make[1]: Leaving directory
> >> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2'
> >>   CHM/PDL-2.007.tar.gz
> >> Tests succeeded but one dependency not OK (Module::Compile)
> >>   CHM/PDL-2.007.tar.gz
> >>   [dependencies] -- NA
> >> Running make install
> >>   make test had returned bad status, won't install without force
> >>
> >> It seems like a similar errors. Actually I think most of the required
> >> component shows up similar errors. Thanks.
> >>
> >> Justin
> >>
> >> > It looks like PDL failed to install. Did you try and install PDL
> >> > separately? If so, what kind of errors did you get with that?
> >> >
> >> > Thanks!
> >> > Ted
> >> >
> >> > On Fri, Mar 13, 2015 at 3:42 PM, <jc...@an...> wrote:
> >> >
> >> >> Hi All,
> >> >>
> >> >> Right now I am trying to install Senseclusters on my ubuntu machine.
> >> I
> >> >> do
> >> >> have sudo account, so I just use the "perl -MCPAN -e 'install
> >> >> Bundle::Text::SenseClusters';" command as the documentation
> >> mentioned.
> >> >>
> >> >> However, after the process is completed, there is no perl script
> >> >> installed
> >> >> to my /usr/local/bin folder. At the end of the installation, it says
> >> >>
> >> >> Running make test
> >> >> PERL_DL_NONLAZY=1 /usr/bin/perl "-MExtUtils::Command::MM"
> >> >> "-MTest::Harness" "-e" "undef *Test::Harness::Switches;
> >> test_harness(0,
> >> >> 'blib/lib', 'blib/arch')" t/*.t
> >> >> t/Text-SenseClusters.t .. ok
> >> >> All tests successful.
> >> >> Files=1, Tests=1,  0 wallclock secs ( 0.01 usr  0.00 sys +  0.01 cusr
> >> >> 0.00 csys =  0.02 CPU)
> >> >> Result: PASS
> >> >>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
> >> >> Tests succeeded but one dependency not OK (PDL)
> >> >>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
> >> >>   [dependencies] -- NA
> >> >> Running make install
> >> >>   make test had returned bad status, won't install without force
> >> >> Running install for module 'Module::Compile'
> >> >> Running make install
> >> >>   make test had returned bad status, won't install without force
> >> >> Running make for C/CH/CHM/PDL-2.007.tar.gz
> >> >>   Has already been unwrapped into directory
> >> >> /usr1/jchiu1/.cpan/build/PDL-2.007-M4Shkn
> >> >> Warning: Prerequisite 'Module::Compile => 0.23' for
> >> >> 'CHM/PDL-2.007.tar.gz'
> >> >> failed when processing 'INGY/Module-Compile-0.35.tar.gz' with
> >> 'make_test
> >> >> => NO'. Continuing, but chances to succeed are limited.
> >> >>   Has already been made
> >> >> Running make test
> >> >>   Has already been tested within this command
> >> >> Running make install
> >> >>   make test had returned bad status, won't install without force
> >> >>
> >> >> So I try to manually install each of the component, and it still
> >> shows
> >> >> the
> >> >> same error. (Seems like the make install step just can't work as it
> >> >> should) Does anyone know how to fix that? Thank you for reading this
> >> >> e-mail.
> >> >>
> >> >> Justin
> >> >>
> >> >>
> >> >>
> >> >>
> >> >>
> >> >>
> >>
> ------------------------------------------------------------------------------
> >> >> Dive into the World of Parallel Programming The Go Parallel Website,
> >> >> sponsored
> >> >> by Intel and developed in partnership with Slashdot Media, is your
> >> hub
> >> >> for
> >> >> all
> >> >> things parallel software development, from weekly thought leadership
> >> >> blogs
> >> >> to
> >> >> news, videos, case studies, tutorials and more. Take a look and join
> >> the
> >> >> conversation now. http://goparallel.sourceforge.net/
> >> >> _______________________________________________
> >> >> senseclusters-users mailing list
> >> >> sen...@li...
> >> >> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >> >>
> >> >
> >>
> ------------------------------------------------------------------------------
> >> > Dive into the World of Parallel Programming The Go Parallel Website,
> >> > sponsored
> >> > by Intel and developed in partnership with Slashdot Media, is your hub
> >> for
> >> > all
> >> > things parallel software development, from weekly thought leadership
> >> blogs
> >> > to
> >> > news, videos, case studies, tutorials and more. Take a look and join
> >> the
> >> > conversation now.
> >> >
> >>
> http://goparallel.sourceforge.net/_______________________________________________
> >> > senseclusters-users mailing list
> >> > sen...@li...
> >> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >> >
> >>
> >>
> >>
> >>
> >>
> ------------------------------------------------------------------------------
> >> Dive into the World of Parallel Programming The Go Parallel Website,
> >> sponsored
> >> by Intel and developed in partnership with Slashdot Media, is your hub
> >> for
> >> all
> >> things parallel software development, from weekly thought leadership
> >> blogs
> >> to
> >> news, videos, case studies, tutorials and more. Take a look and join the
> >> conversation now. http://goparallel.sourceforge.net/
> >> _______________________________________________
> >> senseclusters-users mailing list
> >> sen...@li...
> >> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >>
> >
> ------------------------------------------------------------------------------
> > Dive into the World of Parallel Programming The Go Parallel Website,
> > sponsored
> > by Intel and developed in partnership with Slashdot Media, is your hub
> for
> > all
> > things parallel software development, from weekly thought leadership
> blogs
> > to
> > news, videos, case studies, tutorials and more. Take a look and join the
> > conversation now.
> >
> http://goparallel.sourceforge.net/_______________________________________________
> > senseclusters-users mailing list
> > sen...@li...
> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >
>
>
>
>
> ------------------------------------------------------------------------------
> Dive into the World of Parallel Programming The Go Parallel Website,
> sponsored
> by Intel and developed in partnership with Slashdot Media, is your hub for
> all
> things parallel software development, from weekly thought leadership blogs
> to
> news, videos, case studies, tutorials and more. Take a look and join the
> conversation now. http://goparallel.sourceforge.net/
> _______________________________________________
> senseclusters-users mailing list
> sen...@li...
> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>

Re: [Senseclusters-users] Senseclusters installation problems

[<jc...@an...>]

Hi,

After I install F77 and ExtUtils:F77, the error messages are definitely
different now. Yet while installing PDL, at the end it still shows

****
        Cannot find Proj library, libproj.a.    Please add the correct
library path to Makefile.PL or install Proj.     Cannot find Proj
header file, proj_api.h.       Please add the correct library path
to Makefile.PL or install Proj. Skipping build of PDL::GIS::Proj.
****
make[3]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
make[3]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
****
        Cannot find Proj library, libproj.a.    Please add the correct
library path to Makefile.PL or install Proj.     Cannot find Proj
header file, proj_api.h.       Please add the correct library path
to Makefile.PL or install Proj. Skipping build of PDL::GIS::Proj.
****
make[3]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS/Proj'
make[2]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/GIS'
make[2]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform'
make[3]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
make[3]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
make[3]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
****
   Will skip build of PDL::Transform::Proj4 on this system
****
make[3]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
make[3]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
No tests defined for PDL::Transform::Cartography extension.
make[3]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Cartography'
make[3]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
****
   Will skip build of PDL::Transform::Proj4 on this system
****
make[3]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform/Proj4'
make[2]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Transform'
make[2]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Minuit'
No tests defined for PDL::Minuit extension.
make[2]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Minuit'
make[2]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Compression'
No tests defined for PDL::Compression extension.
make[2]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib/Compression'
make[1]: Leaving directory `/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Lib'
make[1]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2'
make[2]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
make[2]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
make[2]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
make[2]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
/usr/bin/perl -MPod::Select -e "podselect('pdl2');" > pdl2.pod
Skip ../blib/lib/PDL/Perldl2/Script.pm (unchanged)
Skip ../blib/lib/PDL/pdl2.pod (unchanged)
make[2]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
No tests defined for PDL::Perldl2::Profile extension.
make[2]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Profile'
make[2]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
No tests defined for PDL::Perldl2::Plugin extension.
make[2]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2/Plugin'
make[1]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-ifLc9Q/Perldl2'
  CHM/PDL-2.007.tar.gz
Tests succeeded but one dependency not OK (Module::Compile)
  CHM/PDL-2.007.tar.gz
  [dependencies] -- NA
Running make install
  make test had returned bad status, won't install without force

It seems like there is some Proj4 stuff missing?  I wonder is there any
other toolkit I need to install.

Justin

> It looks like this has to do with ExtUtils::F77. Do you have a fortran
> compiler installed? :) If not, go ahead and install one (usually the name
> includes f77). Then install ExtUtils::F77 individually, and then try PDL
> again. This is a PDL dependency issue and so doesn't really have much to
> do
> with SenseClusters itself, but it's something I've run into from time to
> time. Hopefully this gets all the dependencies installed so that
> SenseClusters can then be re-installed.
>
> Let us know how it goes.
>
> Good luck,
> Ted
>
> On Fri, Mar 13, 2015 at 8:56 PM, <jc...@an...> wrote:
>
>> Hi,
>>
>> When I directly use the command "sudo perl -MCPAN -e 'install PDL' ;" to
>> install PDL, the message shows up
>>
>> make[3]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/GIS/Proj'
>> make[2]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/GIS'
>> make[2]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform'
>> make[3]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
>> make[3]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
>> make[3]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
>> ****
>>    Will skip build of PDL::Transform::Proj4 on this system
>> ****
>> make[3]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
>> make[3]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
>> No tests defined for PDL::Transform::Cartography extension.
>> make[3]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
>> make[3]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
>> ****
>>    Will skip build of PDL::Transform::Proj4 on this system
>> ****
>> make[3]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
>> make[2]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform'
>> make[2]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Minuit'
>> ****
>> Can't locate ExtUtils/F77.pm in @INC (@INC contains:
>> /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/inc /etc/perl
>> /usr0/local/lib/perl/5.14.2 /usr0/local/share/perl/5.14.2 /usr/lib/perl5
>> /usr/share/perl5 /usr/lib/perl/5.14.2 /usr/share/perl/5.14.2
>> /usr/local/lib/site_perl /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p
>> /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib .) at (eval 250) line
>> 2.BEGIN failed--compilation aborted at (eval 250) line 2.
>> ExtUtils::F77
>> module not found. Ought not build PDL::Minuit
>> ****
>> make[2]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Minuit'
>> make[2]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Compression'
>> No tests defined for PDL::Compression extension.
>> make[2]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Compression'
>> make[1]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib'
>> make[1]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2'
>> make[2]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
>> make[2]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
>> make[2]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
>> make[2]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
>> /usr/bin/perl -MPod::Select -e "podselect('pdl2');" > pdl2.pod
>> Skip ../blib/lib/PDL/Perldl2/Script.pm (unchanged)
>> Skip ../blib/lib/PDL/pdl2.pod (unchanged)
>> make[2]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
>> No tests defined for PDL::Perldl2::Profile extension.
>> make[2]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
>> make[2]: Entering directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
>> No tests defined for PDL::Perldl2::Plugin extension.
>> make[2]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
>> make[1]: Leaving directory
>> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2'
>>   CHM/PDL-2.007.tar.gz
>> Tests succeeded but one dependency not OK (Module::Compile)
>>   CHM/PDL-2.007.tar.gz
>>   [dependencies] -- NA
>> Running make install
>>   make test had returned bad status, won't install without force
>>
>> It seems like a similar errors. Actually I think most of the required
>> component shows up similar errors. Thanks.
>>
>> Justin
>>
>> > It looks like PDL failed to install. Did you try and install PDL
>> > separately? If so, what kind of errors did you get with that?
>> >
>> > Thanks!
>> > Ted
>> >
>> > On Fri, Mar 13, 2015 at 3:42 PM, <jc...@an...> wrote:
>> >
>> >> Hi All,
>> >>
>> >> Right now I am trying to install Senseclusters on my ubuntu machine.
>> I
>> >> do
>> >> have sudo account, so I just use the "perl -MCPAN -e 'install
>> >> Bundle::Text::SenseClusters';" command as the documentation
>> mentioned.
>> >>
>> >> However, after the process is completed, there is no perl script
>> >> installed
>> >> to my /usr/local/bin folder. At the end of the installation, it says
>> >>
>> >> Running make test
>> >> PERL_DL_NONLAZY=1 /usr/bin/perl "-MExtUtils::Command::MM"
>> >> "-MTest::Harness" "-e" "undef *Test::Harness::Switches;
>> test_harness(0,
>> >> 'blib/lib', 'blib/arch')" t/*.t
>> >> t/Text-SenseClusters.t .. ok
>> >> All tests successful.
>> >> Files=1, Tests=1,  0 wallclock secs ( 0.01 usr  0.00 sys +  0.01 cusr
>> >> 0.00 csys =  0.02 CPU)
>> >> Result: PASS
>> >>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
>> >> Tests succeeded but one dependency not OK (PDL)
>> >>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
>> >>   [dependencies] -- NA
>> >> Running make install
>> >>   make test had returned bad status, won't install without force
>> >> Running install for module 'Module::Compile'
>> >> Running make install
>> >>   make test had returned bad status, won't install without force
>> >> Running make for C/CH/CHM/PDL-2.007.tar.gz
>> >>   Has already been unwrapped into directory
>> >> /usr1/jchiu1/.cpan/build/PDL-2.007-M4Shkn
>> >> Warning: Prerequisite 'Module::Compile => 0.23' for
>> >> 'CHM/PDL-2.007.tar.gz'
>> >> failed when processing 'INGY/Module-Compile-0.35.tar.gz' with
>> 'make_test
>> >> => NO'. Continuing, but chances to succeed are limited.
>> >>   Has already been made
>> >> Running make test
>> >>   Has already been tested within this command
>> >> Running make install
>> >>   make test had returned bad status, won't install without force
>> >>
>> >> So I try to manually install each of the component, and it still
>> shows
>> >> the
>> >> same error. (Seems like the make install step just can't work as it
>> >> should) Does anyone know how to fix that? Thank you for reading this
>> >> e-mail.
>> >>
>> >> Justin
>> >>
>> >>
>> >>
>> >>
>> >>
>> >>
>> ------------------------------------------------------------------------------
>> >> Dive into the World of Parallel Programming The Go Parallel Website,
>> >> sponsored
>> >> by Intel and developed in partnership with Slashdot Media, is your
>> hub
>> >> for
>> >> all
>> >> things parallel software development, from weekly thought leadership
>> >> blogs
>> >> to
>> >> news, videos, case studies, tutorials and more. Take a look and join
>> the
>> >> conversation now. http://goparallel.sourceforge.net/
>> >> _______________________________________________
>> >> senseclusters-users mailing list
>> >> sen...@li...
>> >> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>> >>
>> >
>> ------------------------------------------------------------------------------
>> > Dive into the World of Parallel Programming The Go Parallel Website,
>> > sponsored
>> > by Intel and developed in partnership with Slashdot Media, is your hub
>> for
>> > all
>> > things parallel software development, from weekly thought leadership
>> blogs
>> > to
>> > news, videos, case studies, tutorials and more. Take a look and join
>> the
>> > conversation now.
>> >
>> http://goparallel.sourceforge.net/_______________________________________________
>> > senseclusters-users mailing list
>> > sen...@li...
>> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>> >
>>
>>
>>
>>
>> ------------------------------------------------------------------------------
>> Dive into the World of Parallel Programming The Go Parallel Website,
>> sponsored
>> by Intel and developed in partnership with Slashdot Media, is your hub
>> for
>> all
>> things parallel software development, from weekly thought leadership
>> blogs
>> to
>> news, videos, case studies, tutorials and more. Take a look and join the
>> conversation now. http://goparallel.sourceforge.net/
>> _______________________________________________
>> senseclusters-users mailing list
>> sen...@li...
>> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>>
> ------------------------------------------------------------------------------
> Dive into the World of Parallel Programming The Go Parallel Website,
> sponsored
> by Intel and developed in partnership with Slashdot Media, is your hub for
> all
> things parallel software development, from weekly thought leadership blogs
> to
> news, videos, case studies, tutorials and more. Take a look and join the
> conversation now.
> http://goparallel.sourceforge.net/_______________________________________________
> senseclusters-users mailing list
> sen...@li...
> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>

Re: [Senseclusters-users] Senseclusters installation problems

[Ted P. <dul...@gm...>]

It looks like this has to do with ExtUtils::F77. Do you have a fortran
compiler installed? :) If not, go ahead and install one (usually the name
includes f77). Then install ExtUtils::F77 individually, and then try PDL
again. This is a PDL dependency issue and so doesn't really have much to do
with SenseClusters itself, but it's something I've run into from time to
time. Hopefully this gets all the dependencies installed so that
SenseClusters can then be re-installed.

Let us know how it goes.

Good luck,
Ted

On Fri, Mar 13, 2015 at 8:56 PM, <jc...@an...> wrote:

> Hi,
>
> When I directly use the command "sudo perl -MCPAN -e 'install PDL' ;" to
> install PDL, the message shows up
>
> make[3]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/GIS/Proj'
> make[2]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/GIS'
> make[2]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform'
> make[3]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
> make[3]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
> make[3]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
> ****
>    Will skip build of PDL::Transform::Proj4 on this system
> ****
> make[3]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
> make[3]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
> No tests defined for PDL::Transform::Cartography extension.
> make[3]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
> make[3]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
> ****
>    Will skip build of PDL::Transform::Proj4 on this system
> ****
> make[3]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
> make[2]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform'
> make[2]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Minuit'
> ****
> Can't locate ExtUtils/F77.pm in @INC (@INC contains:
> /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/inc /etc/perl
> /usr0/local/lib/perl/5.14.2 /usr0/local/share/perl/5.14.2 /usr/lib/perl5
> /usr/share/perl5 /usr/lib/perl/5.14.2 /usr/share/perl/5.14.2
> /usr/local/lib/site_perl /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p
> /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib .) at (eval 250) line
> 2.BEGIN failed--compilation aborted at (eval 250) line 2.   ExtUtils::F77
> module not found. Ought not build PDL::Minuit
> ****
> make[2]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Minuit'
> make[2]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Compression'
> No tests defined for PDL::Compression extension.
> make[2]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Compression'
> make[1]: Leaving directory `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib'
> make[1]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2'
> make[2]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
> make[2]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
> make[2]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
> make[2]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
> /usr/bin/perl -MPod::Select -e "podselect('pdl2');" > pdl2.pod
> Skip ../blib/lib/PDL/Perldl2/Script.pm (unchanged)
> Skip ../blib/lib/PDL/pdl2.pod (unchanged)
> make[2]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
> No tests defined for PDL::Perldl2::Profile extension.
> make[2]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
> make[2]: Entering directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
> No tests defined for PDL::Perldl2::Plugin extension.
> make[2]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
> make[1]: Leaving directory
> `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2'
>   CHM/PDL-2.007.tar.gz
> Tests succeeded but one dependency not OK (Module::Compile)
>   CHM/PDL-2.007.tar.gz
>   [dependencies] -- NA
> Running make install
>   make test had returned bad status, won't install without force
>
> It seems like a similar errors. Actually I think most of the required
> component shows up similar errors. Thanks.
>
> Justin
>
> > It looks like PDL failed to install. Did you try and install PDL
> > separately? If so, what kind of errors did you get with that?
> >
> > Thanks!
> > Ted
> >
> > On Fri, Mar 13, 2015 at 3:42 PM, <jc...@an...> wrote:
> >
> >> Hi All,
> >>
> >> Right now I am trying to install Senseclusters on my ubuntu machine. I
> >> do
> >> have sudo account, so I just use the "perl -MCPAN -e 'install
> >> Bundle::Text::SenseClusters';" command as the documentation mentioned.
> >>
> >> However, after the process is completed, there is no perl script
> >> installed
> >> to my /usr/local/bin folder. At the end of the installation, it says
> >>
> >> Running make test
> >> PERL_DL_NONLAZY=1 /usr/bin/perl "-MExtUtils::Command::MM"
> >> "-MTest::Harness" "-e" "undef *Test::Harness::Switches; test_harness(0,
> >> 'blib/lib', 'blib/arch')" t/*.t
> >> t/Text-SenseClusters.t .. ok
> >> All tests successful.
> >> Files=1, Tests=1,  0 wallclock secs ( 0.01 usr  0.00 sys +  0.01 cusr
> >> 0.00 csys =  0.02 CPU)
> >> Result: PASS
> >>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
> >> Tests succeeded but one dependency not OK (PDL)
> >>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
> >>   [dependencies] -- NA
> >> Running make install
> >>   make test had returned bad status, won't install without force
> >> Running install for module 'Module::Compile'
> >> Running make install
> >>   make test had returned bad status, won't install without force
> >> Running make for C/CH/CHM/PDL-2.007.tar.gz
> >>   Has already been unwrapped into directory
> >> /usr1/jchiu1/.cpan/build/PDL-2.007-M4Shkn
> >> Warning: Prerequisite 'Module::Compile => 0.23' for
> >> 'CHM/PDL-2.007.tar.gz'
> >> failed when processing 'INGY/Module-Compile-0.35.tar.gz' with 'make_test
> >> => NO'. Continuing, but chances to succeed are limited.
> >>   Has already been made
> >> Running make test
> >>   Has already been tested within this command
> >> Running make install
> >>   make test had returned bad status, won't install without force
> >>
> >> So I try to manually install each of the component, and it still shows
> >> the
> >> same error. (Seems like the make install step just can't work as it
> >> should) Does anyone know how to fix that? Thank you for reading this
> >> e-mail.
> >>
> >> Justin
> >>
> >>
> >>
> >>
> >>
> >>
> ------------------------------------------------------------------------------
> >> Dive into the World of Parallel Programming The Go Parallel Website,
> >> sponsored
> >> by Intel and developed in partnership with Slashdot Media, is your hub
> >> for
> >> all
> >> things parallel software development, from weekly thought leadership
> >> blogs
> >> to
> >> news, videos, case studies, tutorials and more. Take a look and join the
> >> conversation now. http://goparallel.sourceforge.net/
> >> _______________________________________________
> >> senseclusters-users mailing list
> >> sen...@li...
> >> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >>
> >
> ------------------------------------------------------------------------------
> > Dive into the World of Parallel Programming The Go Parallel Website,
> > sponsored
> > by Intel and developed in partnership with Slashdot Media, is your hub
> for
> > all
> > things parallel software development, from weekly thought leadership
> blogs
> > to
> > news, videos, case studies, tutorials and more. Take a look and join the
> > conversation now.
> >
> http://goparallel.sourceforge.net/_______________________________________________
> > senseclusters-users mailing list
> > sen...@li...
> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >
>
>
>
>
> ------------------------------------------------------------------------------
> Dive into the World of Parallel Programming The Go Parallel Website,
> sponsored
> by Intel and developed in partnership with Slashdot Media, is your hub for
> all
> things parallel software development, from weekly thought leadership blogs
> to
> news, videos, case studies, tutorials and more. Take a look and join the
> conversation now. http://goparallel.sourceforge.net/
> _______________________________________________
> senseclusters-users mailing list
> sen...@li...
> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>

Re: [Senseclusters-users] Senseclusters installation problems

[<jc...@an...>]

Hi,

When I directly use the command "sudo perl -MCPAN -e 'install PDL' ;" to
install PDL, the message shows up

make[3]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/GIS/Proj'
make[2]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/GIS'
make[2]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform'
make[3]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
make[3]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
make[3]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
****
   Will skip build of PDL::Transform::Proj4 on this system
****
make[3]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
make[3]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
No tests defined for PDL::Transform::Cartography extension.
make[3]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Cartography'
make[3]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
****
   Will skip build of PDL::Transform::Proj4 on this system
****
make[3]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform/Proj4'
make[2]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Transform'
make[2]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Minuit'
****
Can't locate ExtUtils/F77.pm in @INC (@INC contains:
/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/inc /etc/perl
/usr0/local/lib/perl/5.14.2 /usr0/local/share/perl/5.14.2 /usr/lib/perl5
/usr/share/perl5 /usr/lib/perl/5.14.2 /usr/share/perl/5.14.2
/usr/local/lib/site_perl /usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p
/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib .) at (eval 250) line
2.BEGIN failed--compilation aborted at (eval 250) line 2.   ExtUtils::F77
module not found. Ought not build PDL::Minuit
****
make[2]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Minuit'
make[2]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Compression'
No tests defined for PDL::Compression extension.
make[2]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib/Compression'
make[1]: Leaving directory `/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Lib'
make[1]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2'
make[2]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
make[2]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
make[2]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
make[2]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
/usr/bin/perl -MPod::Select -e "podselect('pdl2');" > pdl2.pod
Skip ../blib/lib/PDL/Perldl2/Script.pm (unchanged)
Skip ../blib/lib/PDL/pdl2.pod (unchanged)
make[2]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
No tests defined for PDL::Perldl2::Profile extension.
make[2]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Profile'
make[2]: Entering directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
No tests defined for PDL::Perldl2::Plugin extension.
make[2]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2/Plugin'
make[1]: Leaving directory
`/usr1/jchiu1/.cpan/build/PDL-2.007-3VrP6p/Perldl2'
  CHM/PDL-2.007.tar.gz
Tests succeeded but one dependency not OK (Module::Compile)
  CHM/PDL-2.007.tar.gz
  [dependencies] -- NA
Running make install
  make test had returned bad status, won't install without force

It seems like a similar errors. Actually I think most of the required
component shows up similar errors. Thanks.

Justin

> It looks like PDL failed to install. Did you try and install PDL
> separately? If so, what kind of errors did you get with that?
>
> Thanks!
> Ted
>
> On Fri, Mar 13, 2015 at 3:42 PM, <jc...@an...> wrote:
>
>> Hi All,
>>
>> Right now I am trying to install Senseclusters on my ubuntu machine. I
>> do
>> have sudo account, so I just use the "perl -MCPAN -e 'install
>> Bundle::Text::SenseClusters';" command as the documentation mentioned.
>>
>> However, after the process is completed, there is no perl script
>> installed
>> to my /usr/local/bin folder. At the end of the installation, it says
>>
>> Running make test
>> PERL_DL_NONLAZY=1 /usr/bin/perl "-MExtUtils::Command::MM"
>> "-MTest::Harness" "-e" "undef *Test::Harness::Switches; test_harness(0,
>> 'blib/lib', 'blib/arch')" t/*.t
>> t/Text-SenseClusters.t .. ok
>> All tests successful.
>> Files=1, Tests=1,  0 wallclock secs ( 0.01 usr  0.00 sys +  0.01 cusr
>> 0.00 csys =  0.02 CPU)
>> Result: PASS
>>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
>> Tests succeeded but one dependency not OK (PDL)
>>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
>>   [dependencies] -- NA
>> Running make install
>>   make test had returned bad status, won't install without force
>> Running install for module 'Module::Compile'
>> Running make install
>>   make test had returned bad status, won't install without force
>> Running make for C/CH/CHM/PDL-2.007.tar.gz
>>   Has already been unwrapped into directory
>> /usr1/jchiu1/.cpan/build/PDL-2.007-M4Shkn
>> Warning: Prerequisite 'Module::Compile => 0.23' for
>> 'CHM/PDL-2.007.tar.gz'
>> failed when processing 'INGY/Module-Compile-0.35.tar.gz' with 'make_test
>> => NO'. Continuing, but chances to succeed are limited.
>>   Has already been made
>> Running make test
>>   Has already been tested within this command
>> Running make install
>>   make test had returned bad status, won't install without force
>>
>> So I try to manually install each of the component, and it still shows
>> the
>> same error. (Seems like the make install step just can't work as it
>> should) Does anyone know how to fix that? Thank you for reading this
>> e-mail.
>>
>> Justin
>>
>>
>>
>>
>>
>> ------------------------------------------------------------------------------
>> Dive into the World of Parallel Programming The Go Parallel Website,
>> sponsored
>> by Intel and developed in partnership with Slashdot Media, is your hub
>> for
>> all
>> things parallel software development, from weekly thought leadership
>> blogs
>> to
>> news, videos, case studies, tutorials and more. Take a look and join the
>> conversation now. http://goparallel.sourceforge.net/
>> _______________________________________________
>> senseclusters-users mailing list
>> sen...@li...
>> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>>
> ------------------------------------------------------------------------------
> Dive into the World of Parallel Programming The Go Parallel Website,
> sponsored
> by Intel and developed in partnership with Slashdot Media, is your hub for
> all
> things parallel software development, from weekly thought leadership blogs
> to
> news, videos, case studies, tutorials and more. Take a look and join the
> conversation now.
> http://goparallel.sourceforge.net/_______________________________________________
> senseclusters-users mailing list
> sen...@li...
> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>

Re: [Senseclusters-users] Senseclusters installation problems

[Ted P. <dul...@gm...>]

It looks like PDL failed to install. Did you try and install PDL
separately? If so, what kind of errors did you get with that?

Thanks!
Ted

On Fri, Mar 13, 2015 at 3:42 PM, <jc...@an...> wrote:

> Hi All,
>
> Right now I am trying to install Senseclusters on my ubuntu machine. I do
> have sudo account, so I just use the "perl -MCPAN -e 'install
> Bundle::Text::SenseClusters';" command as the documentation mentioned.
>
> However, after the process is completed, there is no perl script installed
> to my /usr/local/bin folder. At the end of the installation, it says
>
> Running make test
> PERL_DL_NONLAZY=1 /usr/bin/perl "-MExtUtils::Command::MM"
> "-MTest::Harness" "-e" "undef *Test::Harness::Switches; test_harness(0,
> 'blib/lib', 'blib/arch')" t/*.t
> t/Text-SenseClusters.t .. ok
> All tests successful.
> Files=1, Tests=1,  0 wallclock secs ( 0.01 usr  0.00 sys +  0.01 cusr
> 0.00 csys =  0.02 CPU)
> Result: PASS
>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
> Tests succeeded but one dependency not OK (PDL)
>   TPEDERSE/Text-SenseClusters-1.03.tar.gz
>   [dependencies] -- NA
> Running make install
>   make test had returned bad status, won't install without force
> Running install for module 'Module::Compile'
> Running make install
>   make test had returned bad status, won't install without force
> Running make for C/CH/CHM/PDL-2.007.tar.gz
>   Has already been unwrapped into directory
> /usr1/jchiu1/.cpan/build/PDL-2.007-M4Shkn
> Warning: Prerequisite 'Module::Compile => 0.23' for 'CHM/PDL-2.007.tar.gz'
> failed when processing 'INGY/Module-Compile-0.35.tar.gz' with 'make_test
> => NO'. Continuing, but chances to succeed are limited.
>   Has already been made
> Running make test
>   Has already been tested within this command
> Running make install
>   make test had returned bad status, won't install without force
>
> So I try to manually install each of the component, and it still shows the
> same error. (Seems like the make install step just can't work as it
> should) Does anyone know how to fix that? Thank you for reading this
> e-mail.
>
> Justin
>
>
>
>
>
> ------------------------------------------------------------------------------
> Dive into the World of Parallel Programming The Go Parallel Website,
> sponsored
> by Intel and developed in partnership with Slashdot Media, is your hub for
> all
> things parallel software development, from weekly thought leadership blogs
> to
> news, videos, case studies, tutorials and more. Take a look and join the
> conversation now. http://goparallel.sourceforge.net/
> _______________________________________________
> senseclusters-users mailing list
> sen...@li...
> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>

[Senseclusters-users] Senseclusters installation problems

[<jc...@an...>]

Hi All,

Right now I am trying to install Senseclusters on my ubuntu machine. I do
have sudo account, so I just use the "perl -MCPAN -e 'install
Bundle::Text::SenseClusters';" command as the documentation mentioned.

However, after the process is completed, there is no perl script installed
to my /usr/local/bin folder. At the end of the installation, it says

Running make test
PERL_DL_NONLAZY=1 /usr/bin/perl "-MExtUtils::Command::MM"
"-MTest::Harness" "-e" "undef *Test::Harness::Switches; test_harness(0,
'blib/lib', 'blib/arch')" t/*.t
t/Text-SenseClusters.t .. ok
All tests successful.
Files=1, Tests=1,  0 wallclock secs ( 0.01 usr  0.00 sys +  0.01 cusr 
0.00 csys =  0.02 CPU)
Result: PASS
  TPEDERSE/Text-SenseClusters-1.03.tar.gz
Tests succeeded but one dependency not OK (PDL)
  TPEDERSE/Text-SenseClusters-1.03.tar.gz
  [dependencies] -- NA
Running make install
  make test had returned bad status, won't install without force
Running install for module 'Module::Compile'
Running make install
  make test had returned bad status, won't install without force
Running make for C/CH/CHM/PDL-2.007.tar.gz
  Has already been unwrapped into directory
/usr1/jchiu1/.cpan/build/PDL-2.007-M4Shkn
Warning: Prerequisite 'Module::Compile => 0.23' for 'CHM/PDL-2.007.tar.gz'
failed when processing 'INGY/Module-Compile-0.35.tar.gz' with 'make_test
=> NO'. Continuing, but chances to succeed are limited.
  Has already been made
Running make test
  Has already been tested within this command
Running make install
  make test had returned bad status, won't install without force

So I try to manually install each of the component, and it still shows the
same error. (Seems like the make install step just can't work as it
should) Does anyone know how to fix that? Thank you for reading this
e-mail.

Justin

Re: [Senseclusters-users] Unsupervided Relation labeling

[Ted P. <dul...@gm...>]

Hi Stefano,

See my responses inline...

On Tue, Dec 9, 2014 at 10:32 AM, Stefano Silvestri
<ste...@gm...> wrote:
> Hi Ted,
> sorry for my delay, but this time we were on holidays in Italy too.
>
> I'll respond instantly, to describe the differences between your example and
> the files in our experiment (1) and then I need even another explanation
> (2).
>
> (1) As you shown, the rlabel file associates each cluster element to the
> istance id of the context.
> My rlabel file is in CLUTO style: the file has on the i-th line the "label"
> of the i-th element of the cluster solution, that is the name of the
> extracted medical relation found by my system.
> So my rlabel file is not a sequence of number, but a sequence of names,
> like:
>
> leg bone
> Cardiology E.R.
> blood transfusion
> ...
>
> Those words are all in my contexts (the medical records used in the
> experiment), but it could happen that two entities of the cluster member
> (each relation clustered is made by two "entity", a single word or a
> multiword extracted from the UMLS databases) come from two different context
> (medical record). So I can't create a file like yours. To overcome this
> case, I've created a single big context, melting all the medical record in
> one context (on one single line). Can this trick be useful?
> And, in this case, will the cluster label be still functional?

In SenseClusters at least, we rely on having many different contexts.
The different contexts are put into clustesr, and then the contexts
that make up a cluster are used to identify a label for that cluster.
Now, if your cluster just consists of one big context, then the
labeling mechanism should still work, since it relies on finding
strongly associated bigrams that are unique to a particular cluster.
However, the cluster would likely need to be pretty large for the
labels to be very interesting (by pretty large I mean at least a few
thousand words).

> (2) My clustering works on a huge dataset and we use a really large number
> of features in the n-dimensional space. I tried to perform a sort of cluster
> labeling using the -showfeatures option in CLUTO and, in this case, I could
> see the discriminative and descrtiptive features of each cluster.
> My question is: does your cluster labeling use the same algorithm of CLUTO
> showfeatures? Could you summarize the step of the used algorithm.

No, the cluster labeling in SenseClusters is different. It identifies
pairs of words (bigrams) that are strongly associated within a
cluster, and unique to that cluster, and uses those as the labels. So,
it typically provides different labels than the cluto showfeatures
open.

A few more details here :

http://search.cpan.org/dist/Text-SenseClusters/Toolkit/clusterlabel/clusterlabeling.pl

I hope this helps, but please let me know if additional questions remain!

Cordially,
Ted
>
> Thank you for your help,
> have a pleasant day,
> Stefano
>
>
>
> 2014-12-02 3:06 GMT+01:00 Ted Pedersen <dul...@gm...>:
>>
>> Hi Stefano,
>>
>> Thanks for your patience. I decided to construct my own little example
>> here, and maybe through that we could see what might be different in
>> your case.
>>
>> Here is my input file :
>>
>> hi ted i am here
>> what is your name
>>
>> And here is this file after running text2sval.pl
>>
>> <corpus lang="english">
>> <lexelt item="LEXELT">
>> <instance id="0">
>> <answer instance="0" senseid="NOTAG"/>
>> <context>
>> hi ted i am here
>> </context>
>> </instance>
>> <instance id="1">
>> <answer instance="1" senseid="NOTAG"/>
>> <context>
>> what is your name
>> </context>
>> </instance>
>> </lexelt>
>> </corpus>
>>
>> Now, I created an rlabel file :
>>
>> 0
>> 1
>>
>> And a cluster_solutions file :
>>
>> 1
>> 1
>>
>> When I run all of the above with format_clusters.pl, I get something like
>> this :
>>
>>  format_clusters.pl testfile.cluster_solution testfile.rlabel
>> --context testfile.sval2
>> <cluster id="1">
>>   <instance id="0">
>>       <context>
>>         hi ted i am here
>>       </context>
>>   </instance>
>>   <instance id="1">
>>       <context>
>>         what is your name
>>       </context>
>>   </instance>
>> </cluster>
>>
>> This shows us that instance 0 and 1 are both found in cluster 1, which
>> is what I intended.
>>
>> Now, I am wondering if that points out any differences with what you
>> did? I will continue to see if I can re-create your error - if so then
>> I'm confident we can figure this out.
>>
>> More soon, and let me know if you see anything here that seems
>> relevant, or if I'm totally off track!
>>
>> Thanks,
>> Ted
>>
>> On Wed, Nov 26, 2014 at 3:19 PM, Stefano Silvestri
>> <ste...@gm...> wrote:
>> > Hi Ted,
>> > as described in the previous email, I've launched my experiment. As
>> > said,
>> > the final step of my pipeline is the cluster labeling, using
>> > Sensclusters.
>> > I want to remember to you that the system performs an unsupervised
>> > relation
>> > extraction from the entities found in 988 clinical records (the entities
>> > have been extracted through UMLS databases and we cluster the couples of
>> > entities).
>> >
>> > To integrate Sunslusters cluster_label in our system, I've produced a
>> > cluto-style output for the clustering results (around 160000 elements)
>> > and
>> > an rlabel file (same number), with the list of all the clustered
>> > elements.
>> > At this point, I have problems in running format_cluster.
>> >
>> > To perform the labeling, I need the the format_cluster's output,
>> > generated
>> > with the --context option. So, I've created a senseval-2 file with
>> > text2sval.pl. The input file of text2sval is a plain text with each
>> > whole
>> > clinical record on each line.
>> > Naturally, each context contains more than one cluster members.
>> > I haven't used any optional argument in text2sval.
>> >
>> > This output has 988 instance ids. Now, when I try to launch
>> > format_cluster,
>> > I have the following error, occurring during the parse of the senseval
>> > file:
>> > Use of uninitialized value $sentence in pattern match (m//) at
>> >
>> > ../.cpan/build/Text-SenseClusters-1.03-FMoSjn/Toolkit/evaluate/format_clusters.pl
>> > line 309, <SCON> line 5938. (when it reaches the last line of senseval2
>> > file).
>> >
>> > I'm thinking that the context used are wrong... so my question are:
>> > 1) do I have to put in the context only the extracted entities or the
>> > relations?
>> > 2) Do the contexts must be in the same number of clustered elements?
>> > 3) If nothing is (theoretically) wrong, what should be the error in the
>> > sense-eval file?
>> >
>> > I'm waiting for your response...
>> > Thank you for the attention and I hope that you can help us to complete
>> > our
>> > research.
>> >
>> >
>> > 2014-10-23 16:02 GMT+02:00 Stefano Silvestri
>> > <ste...@gm...>:
>> >>
>> >> Hi Ted and thanks.
>> >>
>> >> The PoS tagging, entity recognition, feature extraction and the
>> >> clustering
>> >> tasks have been created with our system (not Senseclusters) - still in
>> >> developement.
>> >> Now I'm trying to use the cluster_labeling module of SenseClusters to
>> >> show
>> >> that we have found, in a unsupervised approach, the relation between
>> >> medical
>> >> entities in the clinical records (i.e. diabetes mellitus <> glycemia)
>> >> and
>> >> have, in this way, some labels for the clusters.
>> >>
>> >> I'm now writing the code to create the context files and then I'll run
>> >> the
>> >> experiments on cluster labeling. I'll let you know in a few days if
>> >> everything worked well and, in case of a new publication, I'll cite
>> >> your
>> >> great work.
>> >>
>> >> I'm sure that I will ask some more things in the next days, so I thank
>> >> you
>> >> in advance.
>> >> Stefano Silvestri
>> >>
>> >>
>> >> 2014-10-23 15:07 GMT+02:00 Ted Pedersen <dul...@gm...>:
>> >>>
>> >>> Hi Stefano,
>> >>>
>> >>> This sounds like an interesting project, and it's good to know
>> >>> SenseClusters is proving to be useful. See my responses inline...
>> >>>
>> >>> On Wed, Oct 22, 2014 at 5:58 AM, Stefano Silvestri
>> >>> <ste...@gm...> wrote:
>> >>> > I've used a clustering techniques to discover, in an unsupervised
>> >>> > way,
>> >>> > relations between medical entities contained in a large collection
>> >>> > of
>> >>> > anonymized medical records, in a reserch project of University of
>> >>> > Neaples.
>> >>> > The data set is composed by a large set of features - all the
>> >>> > results
>> >>> > will
>> >>> > be shortly published on a journal.
>> >>> >
>> >>> > The next step in the development of our system is performing an
>> >>> > unsupervised
>> >>> > cluster (relation) labeling. To do that, I think to try the
>> >>> > clusterlabeling
>> >>> > module from Senseclusters. For creating the input to clusterlabeling
>> >>> > I
>> >>> > have
>> >>> > to use format_clusters module with --context option and now I have
>> >>> > some
>> >>> > problems.
>> >>> >
>> >>> > I have already produced a cluto-style cluster solution file (no
>> >>> > problem
>> >>> > for
>> >>> > that) from my system.
>> >>> >
>> >>> > The rlabel file, if I'm right, is a file containing the explicit
>> >>> > corresponding name of each entity in the cluster (in my case the
>> >>> > relation).
>> >>> > Is that right?
>> >>>
>> >>> Yes, rlabel shows the cluster to which each instance has been
>> >>> assigned.
>> >>>
>> >>> >
>> >>> > And now the problems about the context file...
>> >>> > It should be in senseval2 format. My experimental assesment is made
>> >>> > of
>> >>> > a
>> >>> > plain text files - so I should use plain text to headless senseval2
>> >>> > utility.
>> >>> >
>> >>> > I have some questions.
>> >>> >
>> >>> > 1) Does the context file have to put together all my input files
>> >>> > (the
>> >>> > medical records) in one large file (and each context must correspond
>> >>> > to
>> >>> > a
>> >>> > medical record)?
>> >>>
>> >>> Yes, the input for each run of SenseClusters should be a single file
>> >>> with all your contexts included.
>> >>>
>> >>> >
>> >>> > 2) Does the contexts be headless, or I have to tag (<head></head>)
>> >>> > all
>> >>> > the
>> >>> > entities (medical names) in input?
>> >>>
>> >>> Your contexts can be headless, and so there is no need to include
>> >>> <head> tags in your contexts.
>> >>>
>> >>> >
>> >>> > 3) Are other costrains in the context files (formatting, tags, or
>> >>> > other)?
>> >>> >
>> >>>
>> >>> There shouldn't be. The output from text2sval.pl should be acceptable
>> >>> for input "as is".
>> >>>
>> >>> > In case of success of the experiments, of course, I'll credit and
>> >>> > cite
>> >>> > the
>> >>> > Senseclusters project.
>> >>> >
>> >>> > PS - my system works on italian language.
>> >>>
>> >>> That's great! We'd be happy to answer further questions as they arise,
>> >>> and will be curious to know how things work out!
>> >>>
>> >>> Good luck,
>> >>> Ted
>> >>>
>> >>> >
>> >>> > Thanks for response,
>> >>> > Stefano Silvestri,
>> >>> > NLP researcher at University of Neaples "Federico II"
>> >>> >
>> >>> >
>> >>> >
>> >>> > ------------------------------------------------------------------------------
>> >>> > Comprehensive Server Monitoring with Site24x7.
>> >>> > Monitor 10 servers for $9/Month.
>> >>> > Get alerted through email, SMS, voice calls or mobile push
>> >>> > notifications.
>> >>> > Take corrective actions from your mobile device.
>> >>> > http://p.sf.net/sfu/Zoho
>> >>> > _______________________________________________
>> >>> > senseclusters-users mailing list
>> >>> > sen...@li...
>> >>> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>> >>> >
>> >>>
>> >>>
>> >>>
>> >>> --
>> >>> Ted Pedersen
>> >>> http://www.d.umn.edu/~tpederse
>> >>>
>> >>>
>> >>>
>> >>> ------------------------------------------------------------------------------
>> >>> _______________________________________________
>> >>> senseclusters-users mailing list
>> >>> sen...@li...
>> >>> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>> >>
>> >>
>> >
>> >
>> >
>> > ------------------------------------------------------------------------------
>> > Download BIRT iHub F-Type - The Free Enterprise-Grade BIRT Server
>> > from Actuate! Instantly Supercharge Your Business Reports and Dashboards
>> > with Interactivity, Sharing, Native Excel Exports, App Integration &
>> > more
>> > Get technology previously reserved for billion-dollar corporations, FREE
>> >
>> > http://pubads.g.doubleclick.net/gampad/clk?id=157005751&iu=/4140/ostg.clktrk
>> > _______________________________________________
>> > senseclusters-users mailing list
>> > sen...@li...
>> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>> >
>>
>>
>> ------------------------------------------------------------------------------
>> Download BIRT iHub F-Type - The Free Enterprise-Grade BIRT Server
>> from Actuate! Instantly Supercharge Your Business Reports and Dashboards
>> with Interactivity, Sharing, Native Excel Exports, App Integration & more
>> Get technology previously reserved for billion-dollar corporations, FREE
>>
>> http://pubads.g.doubleclick.net/gampad/clk?id=157005751&iu=/4140/ostg.clktrk
>> _______________________________________________
>> senseclusters-users mailing list
>> sen...@li...
>> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>
>
>
> ------------------------------------------------------------------------------
> Download BIRT iHub F-Type - The Free Enterprise-Grade BIRT Server
> from Actuate! Instantly Supercharge Your Business Reports and Dashboards
> with Interactivity, Sharing, Native Excel Exports, App Integration & more
> Get technology previously reserved for billion-dollar corporations, FREE
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>

Re: [Senseclusters-users] Unsupervided Relation labeling

[Stefano S. <ste...@gm...>]

Hi Ted,
sorry for my delay, but this time we were on holidays in Italy too.

I'll respond instantly, to describe the differences between your example
and the files in our experiment (1) and then I need even another
explanation (2).

(1) As you shown, the rlabel file associates each cluster element to the
istance id of the context.
My rlabel file is in CLUTO style: the file has on the i-th line the "label"
of the i-th element of the cluster solution, that is the name of the
extracted medical relation found by my system.
So my rlabel file is not a sequence of number, but a sequence of names,
like:

leg bone
Cardiology E.R.
blood transfusion
...

Those words are all in my contexts (the medical records used in the
experiment), but it could happen that two entities of the cluster member
(each relation clustered is made by two "entity", a single word or a
multiword extracted from the UMLS databases) come from two different
context (medical record). So I can't create a file like yours. To overcome
this case, I've created a single big context, melting all the medical
record in one context (on one single line). Can this trick be useful?
And, in this case, will the cluster label be still functional?

(2) My clustering works on a huge dataset and we use a really large number
of features in the n-dimensional space. I tried to perform a sort of
cluster labeling using the -showfeatures option in CLUTO and, in this case,
I could see the discriminative and descrtiptive features of each cluster.
My question is: does your cluster labeling use the same algorithm of CLUTO
showfeatures? Could you summarize the step of the used algorithm.

Thank you for your help,
have a pleasant day,
Stefano



2014-12-02 3:06 GMT+01:00 Ted Pedersen <dul...@gm...>:

> Hi Stefano,
>
> Thanks for your patience. I decided to construct my own little example
> here, and maybe through that we could see what might be different in
> your case.
>
> Here is my input file :
>
> hi ted i am here
> what is your name
>
> And here is this file after running text2sval.pl
>
> <corpus lang="english">
> <lexelt item="LEXELT">
> <instance id="0">
> <answer instance="0" senseid="NOTAG"/>
> <context>
> hi ted i am here
> </context>
> </instance>
> <instance id="1">
> <answer instance="1" senseid="NOTAG"/>
> <context>
> what is your name
> </context>
> </instance>
> </lexelt>
> </corpus>
>
> Now, I created an rlabel file :
>
> 0
> 1
>
> And a cluster_solutions file :
>
> 1
> 1
>
> When I run all of the above with format_clusters.pl, I get something like
> this :
>
>  format_clusters.pl testfile.cluster_solution testfile.rlabel
> --context testfile.sval2
> <cluster id="1">
>   <instance id="0">
>       <context>
>         hi ted i am here
>       </context>
>   </instance>
>   <instance id="1">
>       <context>
>         what is your name
>       </context>
>   </instance>
> </cluster>
>
> This shows us that instance 0 and 1 are both found in cluster 1, which
> is what I intended.
>
> Now, I am wondering if that points out any differences with what you
> did? I will continue to see if I can re-create your error - if so then
> I'm confident we can figure this out.
>
> More soon, and let me know if you see anything here that seems
> relevant, or if I'm totally off track!
>
> Thanks,
> Ted
>
> On Wed, Nov 26, 2014 at 3:19 PM, Stefano Silvestri
> <ste...@gm...> wrote:
> > Hi Ted,
> > as described in the previous email, I've launched my experiment. As said,
> > the final step of my pipeline is the cluster labeling, using
> Sensclusters.
> > I want to remember to you that the system performs an unsupervised
> relation
> > extraction from the entities found in 988 clinical records (the entities
> > have been extracted through UMLS databases and we cluster the couples of
> > entities).
> >
> > To integrate Sunslusters cluster_label in our system, I've produced a
> > cluto-style output for the clustering results (around 160000 elements)
> and
> > an rlabel file (same number), with the list of all the clustered
> elements.
> > At this point, I have problems in running format_cluster.
> >
> > To perform the labeling, I need the the format_cluster's output,
> generated
> > with the --context option. So, I've created a senseval-2 file with
> > text2sval.pl. The input file of text2sval is a plain text with each
> whole
> > clinical record on each line.
> > Naturally, each context contains more than one cluster members.
> > I haven't used any optional argument in text2sval.
> >
> > This output has 988 instance ids. Now, when I try to launch
> format_cluster,
> > I have the following error, occurring during the parse of the senseval
> file:
> > Use of uninitialized value $sentence in pattern match (m//) at
> > ../.cpan/build/Text-SenseClusters-1.03-FMoSjn/Toolkit/evaluate/
> format_clusters.pl
> > line 309, <SCON> line 5938. (when it reaches the last line of senseval2
> > file).
> >
> > I'm thinking that the context used are wrong... so my question are:
> > 1) do I have to put in the context only the extracted entities or the
> > relations?
> > 2) Do the contexts must be in the same number of clustered elements?
> > 3) If nothing is (theoretically) wrong, what should be the error in the
> > sense-eval file?
> >
> > I'm waiting for your response...
> > Thank you for the attention and I hope that you can help us to complete
> our
> > research.
> >
> >
> > 2014-10-23 16:02 GMT+02:00 Stefano Silvestri <
> ste...@gm...>:
> >>
> >> Hi Ted and thanks.
> >>
> >> The PoS tagging, entity recognition, feature extraction and the
> clustering
> >> tasks have been created with our system (not Senseclusters) - still in
> >> developement.
> >> Now I'm trying to use the cluster_labeling module of SenseClusters to
> show
> >> that we have found, in a unsupervised approach, the relation between
> medical
> >> entities in the clinical records (i.e. diabetes mellitus <> glycemia)
> and
> >> have, in this way, some labels for the clusters.
> >>
> >> I'm now writing the code to create the context files and then I'll run
> the
> >> experiments on cluster labeling. I'll let you know in a few days if
> >> everything worked well and, in case of a new publication, I'll cite your
> >> great work.
> >>
> >> I'm sure that I will ask some more things in the next days, so I thank
> you
> >> in advance.
> >> Stefano Silvestri
> >>
> >>
> >> 2014-10-23 15:07 GMT+02:00 Ted Pedersen <dul...@gm...>:
> >>>
> >>> Hi Stefano,
> >>>
> >>> This sounds like an interesting project, and it's good to know
> >>> SenseClusters is proving to be useful. See my responses inline...
> >>>
> >>> On Wed, Oct 22, 2014 at 5:58 AM, Stefano Silvestri
> >>> <ste...@gm...> wrote:
> >>> > I've used a clustering techniques to discover, in an unsupervised
> way,
> >>> > relations between medical entities contained in a large collection of
> >>> > anonymized medical records, in a reserch project of University of
> >>> > Neaples.
> >>> > The data set is composed by a large set of features - all the results
> >>> > will
> >>> > be shortly published on a journal.
> >>> >
> >>> > The next step in the development of our system is performing an
> >>> > unsupervised
> >>> > cluster (relation) labeling. To do that, I think to try the
> >>> > clusterlabeling
> >>> > module from Senseclusters. For creating the input to clusterlabeling
> I
> >>> > have
> >>> > to use format_clusters module with --context option and now I have
> some
> >>> > problems.
> >>> >
> >>> > I have already produced a cluto-style cluster solution file (no
> problem
> >>> > for
> >>> > that) from my system.
> >>> >
> >>> > The rlabel file, if I'm right, is a file containing the explicit
> >>> > corresponding name of each entity in the cluster (in my case the
> >>> > relation).
> >>> > Is that right?
> >>>
> >>> Yes, rlabel shows the cluster to which each instance has been assigned.
> >>>
> >>> >
> >>> > And now the problems about the context file...
> >>> > It should be in senseval2 format. My experimental assesment is made
> of
> >>> > a
> >>> > plain text files - so I should use plain text to headless senseval2
> >>> > utility.
> >>> >
> >>> > I have some questions.
> >>> >
> >>> > 1) Does the context file have to put together all my input files (the
> >>> > medical records) in one large file (and each context must correspond
> to
> >>> > a
> >>> > medical record)?
> >>>
> >>> Yes, the input for each run of SenseClusters should be a single file
> >>> with all your contexts included.
> >>>
> >>> >
> >>> > 2) Does the contexts be headless, or I have to tag (<head></head>)
> all
> >>> > the
> >>> > entities (medical names) in input?
> >>>
> >>> Your contexts can be headless, and so there is no need to include
> >>> <head> tags in your contexts.
> >>>
> >>> >
> >>> > 3) Are other costrains in the context files (formatting, tags, or
> >>> > other)?
> >>> >
> >>>
> >>> There shouldn't be. The output from text2sval.pl should be acceptable
> >>> for input "as is".
> >>>
> >>> > In case of success of the experiments, of course, I'll credit and
> cite
> >>> > the
> >>> > Senseclusters project.
> >>> >
> >>> > PS - my system works on italian language.
> >>>
> >>> That's great! We'd be happy to answer further questions as they arise,
> >>> and will be curious to know how things work out!
> >>>
> >>> Good luck,
> >>> Ted
> >>>
> >>> >
> >>> > Thanks for response,
> >>> > Stefano Silvestri,
> >>> > NLP researcher at University of Neaples "Federico II"
> >>> >
> >>> >
> >>> >
> ------------------------------------------------------------------------------
> >>> > Comprehensive Server Monitoring with Site24x7.
> >>> > Monitor 10 servers for $9/Month.
> >>> > Get alerted through email, SMS, voice calls or mobile push
> >>> > notifications.
> >>> > Take corrective actions from your mobile device.
> >>> > http://p.sf.net/sfu/Zoho
> >>> > _______________________________________________
> >>> > senseclusters-users mailing list
> >>> > sen...@li...
> >>> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >>> >
> >>>
> >>>
> >>>
> >>> --
> >>> Ted Pedersen
> >>> http://www.d.umn.edu/~tpederse
> >>>
> >>>
> >>>
> ------------------------------------------------------------------------------
> >>> _______________________________________________
> >>> senseclusters-users mailing list
> >>> sen...@li...
> >>> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >>
> >>
> >
> >
> >
> ------------------------------------------------------------------------------
> > Download BIRT iHub F-Type - The Free Enterprise-Grade BIRT Server
> > from Actuate! Instantly Supercharge Your Business Reports and Dashboards
> > with Interactivity, Sharing, Native Excel Exports, App Integration & more
> > Get technology previously reserved for billion-dollar corporations, FREE
> >
> http://pubads.g.doubleclick.net/gampad/clk?id=157005751&iu=/4140/ostg.clktrk
> > _______________________________________________
> > senseclusters-users mailing list
> > sen...@li...
> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >
>
>
> ------------------------------------------------------------------------------
> Download BIRT iHub F-Type - The Free Enterprise-Grade BIRT Server
> from Actuate! Instantly Supercharge Your Business Reports and Dashboards
> with Interactivity, Sharing, Native Excel Exports, App Integration & more
> Get technology previously reserved for billion-dollar corporations, FREE
>
> http://pubads.g.doubleclick.net/gampad/clk?id=157005751&iu=/4140/ostg.clktrk
> _______________________________________________
> senseclusters-users mailing list
> sen...@li...
> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>

Re: [Senseclusters-users] Unsupervided Relation labeling

[Ted P. <dul...@gm...>]

Hi Stefano,

Thanks for your patience. I decided to construct my own little example
here, and maybe through that we could see what might be different in
your case.

Here is my input file :

hi ted i am here
what is your name

And here is this file after running text2sval.pl

<corpus lang="english">
<lexelt item="LEXELT">
<instance id="0">
<answer instance="0" senseid="NOTAG"/>
<context>
hi ted i am here
</context>
</instance>
<instance id="1">
<answer instance="1" senseid="NOTAG"/>
<context>
what is your name
</context>
</instance>
</lexelt>
</corpus>

Now, I created an rlabel file :

0
1

And a cluster_solutions file :

1
1

When I run all of the above with format_clusters.pl, I get something like this :

 format_clusters.pl testfile.cluster_solution testfile.rlabel
--context testfile.sval2
<cluster id="1">
  <instance id="0">
      <context>
        hi ted i am here
      </context>
  </instance>
  <instance id="1">
      <context>
        what is your name
      </context>
  </instance>
</cluster>

This shows us that instance 0 and 1 are both found in cluster 1, which
is what I intended.

Now, I am wondering if that points out any differences with what you
did? I will continue to see if I can re-create your error - if so then
I'm confident we can figure this out.

More soon, and let me know if you see anything here that seems
relevant, or if I'm totally off track!

Thanks,
Ted

On Wed, Nov 26, 2014 at 3:19 PM, Stefano Silvestri
<ste...@gm...> wrote:
> Hi Ted,
> as described in the previous email, I've launched my experiment. As said,
> the final step of my pipeline is the cluster labeling, using Sensclusters.
> I want to remember to you that the system performs an unsupervised relation
> extraction from the entities found in 988 clinical records (the entities
> have been extracted through UMLS databases and we cluster the couples of
> entities).
>
> To integrate Sunslusters cluster_label in our system, I've produced a
> cluto-style output for the clustering results (around 160000 elements) and
> an rlabel file (same number), with the list of all the clustered elements.
> At this point, I have problems in running format_cluster.
>
> To perform the labeling, I need the the format_cluster's output, generated
> with the --context option. So, I've created a senseval-2 file with
> text2sval.pl. The input file of text2sval is a plain text with each whole
> clinical record on each line.
> Naturally, each context contains more than one cluster members.
> I haven't used any optional argument in text2sval.
>
> This output has 988 instance ids. Now, when I try to launch format_cluster,
> I have the following error, occurring during the parse of the senseval file:
> Use of uninitialized value $sentence in pattern match (m//) at
> ../.cpan/build/Text-SenseClusters-1.03-FMoSjn/Toolkit/evaluate/format_clusters.pl
> line 309, <SCON> line 5938. (when it reaches the last line of senseval2
> file).
>
> I'm thinking that the context used are wrong... so my question are:
> 1) do I have to put in the context only the extracted entities or the
> relations?
> 2) Do the contexts must be in the same number of clustered elements?
> 3) If nothing is (theoretically) wrong, what should be the error in the
> sense-eval file?
>
> I'm waiting for your response...
> Thank you for the attention and I hope that you can help us to complete our
> research.
>
>
> 2014-10-23 16:02 GMT+02:00 Stefano Silvestri <ste...@gm...>:
>>
>> Hi Ted and thanks.
>>
>> The PoS tagging, entity recognition, feature extraction and the clustering
>> tasks have been created with our system (not Senseclusters) - still in
>> developement.
>> Now I'm trying to use the cluster_labeling module of SenseClusters to show
>> that we have found, in a unsupervised approach, the relation between medical
>> entities in the clinical records (i.e. diabetes mellitus <> glycemia) and
>> have, in this way, some labels for the clusters.
>>
>> I'm now writing the code to create the context files and then I'll run the
>> experiments on cluster labeling. I'll let you know in a few days if
>> everything worked well and, in case of a new publication, I'll cite your
>> great work.
>>
>> I'm sure that I will ask some more things in the next days, so I thank you
>> in advance.
>> Stefano Silvestri
>>
>>
>> 2014-10-23 15:07 GMT+02:00 Ted Pedersen <dul...@gm...>:
>>>
>>> Hi Stefano,
>>>
>>> This sounds like an interesting project, and it's good to know
>>> SenseClusters is proving to be useful. See my responses inline...
>>>
>>> On Wed, Oct 22, 2014 at 5:58 AM, Stefano Silvestri
>>> <ste...@gm...> wrote:
>>> > I've used a clustering techniques to discover, in an unsupervised way,
>>> > relations between medical entities contained in a large collection of
>>> > anonymized medical records, in a reserch project of University of
>>> > Neaples.
>>> > The data set is composed by a large set of features - all the results
>>> > will
>>> > be shortly published on a journal.
>>> >
>>> > The next step in the development of our system is performing an
>>> > unsupervised
>>> > cluster (relation) labeling. To do that, I think to try the
>>> > clusterlabeling
>>> > module from Senseclusters. For creating the input to clusterlabeling I
>>> > have
>>> > to use format_clusters module with --context option and now I have some
>>> > problems.
>>> >
>>> > I have already produced a cluto-style cluster solution file (no problem
>>> > for
>>> > that) from my system.
>>> >
>>> > The rlabel file, if I'm right, is a file containing the explicit
>>> > corresponding name of each entity in the cluster (in my case the
>>> > relation).
>>> > Is that right?
>>>
>>> Yes, rlabel shows the cluster to which each instance has been assigned.
>>>
>>> >
>>> > And now the problems about the context file...
>>> > It should be in senseval2 format. My experimental assesment is made of
>>> > a
>>> > plain text files - so I should use plain text to headless senseval2
>>> > utility.
>>> >
>>> > I have some questions.
>>> >
>>> > 1) Does the context file have to put together all my input files (the
>>> > medical records) in one large file (and each context must correspond to
>>> > a
>>> > medical record)?
>>>
>>> Yes, the input for each run of SenseClusters should be a single file
>>> with all your contexts included.
>>>
>>> >
>>> > 2) Does the contexts be headless, or I have to tag (<head></head>) all
>>> > the
>>> > entities (medical names) in input?
>>>
>>> Your contexts can be headless, and so there is no need to include
>>> <head> tags in your contexts.
>>>
>>> >
>>> > 3) Are other costrains in the context files (formatting, tags, or
>>> > other)?
>>> >
>>>
>>> There shouldn't be. The output from text2sval.pl should be acceptable
>>> for input "as is".
>>>
>>> > In case of success of the experiments, of course, I'll credit and cite
>>> > the
>>> > Senseclusters project.
>>> >
>>> > PS - my system works on italian language.
>>>
>>> That's great! We'd be happy to answer further questions as they arise,
>>> and will be curious to know how things work out!
>>>
>>> Good luck,
>>> Ted
>>>
>>> >
>>> > Thanks for response,
>>> > Stefano Silvestri,
>>> > NLP researcher at University of Neaples "Federico II"
>>> >
>>> >
>>> > ------------------------------------------------------------------------------
>>> > Comprehensive Server Monitoring with Site24x7.
>>> > Monitor 10 servers for $9/Month.
>>> > Get alerted through email, SMS, voice calls or mobile push
>>> > notifications.
>>> > Take corrective actions from your mobile device.
>>> > http://p.sf.net/sfu/Zoho
>>> > _______________________________________________
>>> > senseclusters-users mailing list
>>> > sen...@li...
>>> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>>> >
>>>
>>>
>>>
>>> --
>>> Ted Pedersen
>>> http://www.d.umn.edu/~tpederse
>>>
>>>
>>> ------------------------------------------------------------------------------
>>> _______________________________________________
>>> senseclusters-users mailing list
>>> sen...@li...
>>> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>>
>>
>
>
> ------------------------------------------------------------------------------
> Download BIRT iHub F-Type - The Free Enterprise-Grade BIRT Server
> from Actuate! Instantly Supercharge Your Business Reports and Dashboards
> with Interactivity, Sharing, Native Excel Exports, App Integration & more
> Get technology previously reserved for billion-dollar corporations, FREE
> http://pubads.g.doubleclick.net/gampad/clk?id=157005751&iu=/4140/ostg.clktrk
> _______________________________________________
> senseclusters-users mailing list
> sen...@li...
> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>

Re: [Senseclusters-users] Unsupervided Relation labeling

[Stefano S. <ste...@gm...>]

Yes Ted, thanks...
In Italy we don't have Thanksgiving... so I forgot that you were on
holidays in USA... Excuse me for the disturb!

I worked here and meanwhile I've started to use CLUTO output for a first
cluster label estimation.

Anyway, I'm waiting for your response, to try to complete our system with
sensclusters.
Thank you so much.

Stefano Silvestri,
Università di Napoli "Federico II"


2014-12-01 14:29 GMT+01:00 Ted Pedersen <dul...@gm...>:

> My apologies for the very delayed response - you caught us right
> before the start of the Thanksgiving Holidays here in the USA - we are
> back to work now, and so I'll take a look at this today.
>
> On Wed, Nov 26, 2014 at 3:19 PM, Stefano Silvestri
> <ste...@gm...> wrote:
> > Hi Ted,
> > as described in the previous email, I've launched my experiment. As said,
> > the final step of my pipeline is the cluster labeling, using
> Sensclusters.
> > I want to remember to you that the system performs an unsupervised
> relation
> > extraction from the entities found in 988 clinical records (the entities
> > have been extracted through UMLS databases and we cluster the couples of
> > entities).
> >
> > To integrate Sunslusters cluster_label in our system, I've produced a
> > cluto-style output for the clustering results (around 160000 elements)
> and
> > an rlabel file (same number), with the list of all the clustered
> elements.
> > At this point, I have problems in running format_cluster.
> >
> > To perform the labeling, I need the the format_cluster's output,
> generated
> > with the --context option. So, I've created a senseval-2 file with
> > text2sval.pl. The input file of text2sval is a plain text with each
> whole
> > clinical record on each line.
> > Naturally, each context contains more than one cluster members.
> > I haven't used any optional argument in text2sval.
> >
> > This output has 988 instance ids. Now, when I try to launch
> format_cluster,
> > I have the following error, occurring during the parse of the senseval
> file:
> > Use of uninitialized value $sentence in pattern match (m//) at
> > ../.cpan/build/Text-SenseClusters-1.03-FMoSjn/Toolkit/evaluate/
> format_clusters.pl
> > line 309, <SCON> line 5938. (when it reaches the last line of senseval2
> > file).
> >
> > I'm thinking that the context used are wrong... so my question are:
> > 1) do I have to put in the context only the extracted entities or the
> > relations?
> > 2) Do the contexts must be in the same number of clustered elements?
> > 3) If nothing is (theoretically) wrong, what should be the error in the
> > sense-eval file?
> >
> > I'm waiting for your response...
> > Thank you for the attention and I hope that you can help us to complete
> our
> > research.
> >
> >
> > 2014-10-23 16:02 GMT+02:00 Stefano Silvestri <
> ste...@gm...>:
> >>
> >> Hi Ted and thanks.
> >>
> >> The PoS tagging, entity recognition, feature extraction and the
> clustering
> >> tasks have been created with our system (not Senseclusters) - still in
> >> developement.
> >> Now I'm trying to use the cluster_labeling module of SenseClusters to
> show
> >> that we have found, in a unsupervised approach, the relation between
> medical
> >> entities in the clinical records (i.e. diabetes mellitus <> glycemia)
> and
> >> have, in this way, some labels for the clusters.
> >>
> >> I'm now writing the code to create the context files and then I'll run
> the
> >> experiments on cluster labeling. I'll let you know in a few days if
> >> everything worked well and, in case of a new publication, I'll cite your
> >> great work.
> >>
> >> I'm sure that I will ask some more things in the next days, so I thank
> you
> >> in advance.
> >> Stefano Silvestri
> >>
> >>
> >> 2014-10-23 15:07 GMT+02:00 Ted Pedersen <dul...@gm...>:
> >>>
> >>> Hi Stefano,
> >>>
> >>> This sounds like an interesting project, and it's good to know
> >>> SenseClusters is proving to be useful. See my responses inline...
> >>>
> >>> On Wed, Oct 22, 2014 at 5:58 AM, Stefano Silvestri
> >>> <ste...@gm...> wrote:
> >>> > I've used a clustering techniques to discover, in an unsupervised
> way,
> >>> > relations between medical entities contained in a large collection of
> >>> > anonymized medical records, in a reserch project of University of
> >>> > Neaples.
> >>> > The data set is composed by a large set of features - all the results
> >>> > will
> >>> > be shortly published on a journal.
> >>> >
> >>> > The next step in the development of our system is performing an
> >>> > unsupervised
> >>> > cluster (relation) labeling. To do that, I think to try the
> >>> > clusterlabeling
> >>> > module from Senseclusters. For creating the input to clusterlabeling
> I
> >>> > have
> >>> > to use format_clusters module with --context option and now I have
> some
> >>> > problems.
> >>> >
> >>> > I have already produced a cluto-style cluster solution file (no
> problem
> >>> > for
> >>> > that) from my system.
> >>> >
> >>> > The rlabel file, if I'm right, is a file containing the explicit
> >>> > corresponding name of each entity in the cluster (in my case the
> >>> > relation).
> >>> > Is that right?
> >>>
> >>> Yes, rlabel shows the cluster to which each instance has been assigned.
> >>>
> >>> >
> >>> > And now the problems about the context file...
> >>> > It should be in senseval2 format. My experimental assesment is made
> of
> >>> > a
> >>> > plain text files - so I should use plain text to headless senseval2
> >>> > utility.
> >>> >
> >>> > I have some questions.
> >>> >
> >>> > 1) Does the context file have to put together all my input files (the
> >>> > medical records) in one large file (and each context must correspond
> to
> >>> > a
> >>> > medical record)?
> >>>
> >>> Yes, the input for each run of SenseClusters should be a single file
> >>> with all your contexts included.
> >>>
> >>> >
> >>> > 2) Does the contexts be headless, or I have to tag (<head></head>)
> all
> >>> > the
> >>> > entities (medical names) in input?
> >>>
> >>> Your contexts can be headless, and so there is no need to include
> >>> <head> tags in your contexts.
> >>>
> >>> >
> >>> > 3) Are other costrains in the context files (formatting, tags, or
> >>> > other)?
> >>> >
> >>>
> >>> There shouldn't be. The output from text2sval.pl should be acceptable
> >>> for input "as is".
> >>>
> >>> > In case of success of the experiments, of course, I'll credit and
> cite
> >>> > the
> >>> > Senseclusters project.
> >>> >
> >>> > PS - my system works on italian language.
> >>>
> >>> That's great! We'd be happy to answer further questions as they arise,
> >>> and will be curious to know how things work out!
> >>>
> >>> Good luck,
> >>> Ted
> >>>
> >>> >
> >>> > Thanks for response,
> >>> > Stefano Silvestri,
> >>> > NLP researcher at University of Neaples "Federico II"
> >>> >
> >>> >
> >>> >
> ------------------------------------------------------------------------------
> >>> > Comprehensive Server Monitoring with Site24x7.
> >>> > Monitor 10 servers for $9/Month.
> >>> > Get alerted through email, SMS, voice calls or mobile push
> >>> > notifications.
> >>> > Take corrective actions from your mobile device.
> >>> > http://p.sf.net/sfu/Zoho
> >>> > _______________________________________________
> >>> > senseclusters-users mailing list
> >>> > sen...@li...
> >>> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >>> >
> >>>
> >>>
> >>>
> >>> --
> >>> Ted Pedersen
> >>> http://www.d.umn.edu/~tpederse
> >>>
> >>>
> >>>
> ------------------------------------------------------------------------------
> >>> _______________________________________________
> >>> senseclusters-users mailing list
> >>> sen...@li...
> >>> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
> >>
> >>
> >
> >
> >
> ------------------------------------------------------------------------------
> > Download BIRT iHub F-Type - The Free Enterprise-Grade BIRT Server
> > from Actuate! Instantly Supercharge Your Business Reports and Dashboards
> > with Interactivity, Sharing, Native Excel Exports, App Integration & more
> > Get technology previously reserved for billion-dollar corporations, FREE
> >
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Re: [Senseclusters-users] Unsupervided Relation labeling

[Ted P. <dul...@gm...>]

My apologies for the very delayed response - you caught us right
before the start of the Thanksgiving Holidays here in the USA - we are
back to work now, and so I'll take a look at this today.

On Wed, Nov 26, 2014 at 3:19 PM, Stefano Silvestri
<ste...@gm...> wrote:
> Hi Ted,
> as described in the previous email, I've launched my experiment. As said,
> the final step of my pipeline is the cluster labeling, using Sensclusters.
> I want to remember to you that the system performs an unsupervised relation
> extraction from the entities found in 988 clinical records (the entities
> have been extracted through UMLS databases and we cluster the couples of
> entities).
>
> To integrate Sunslusters cluster_label in our system, I've produced a
> cluto-style output for the clustering results (around 160000 elements) and
> an rlabel file (same number), with the list of all the clustered elements.
> At this point, I have problems in running format_cluster.
>
> To perform the labeling, I need the the format_cluster's output, generated
> with the --context option. So, I've created a senseval-2 file with
> text2sval.pl. The input file of text2sval is a plain text with each whole
> clinical record on each line.
> Naturally, each context contains more than one cluster members.
> I haven't used any optional argument in text2sval.
>
> This output has 988 instance ids. Now, when I try to launch format_cluster,
> I have the following error, occurring during the parse of the senseval file:
> Use of uninitialized value $sentence in pattern match (m//) at
> ../.cpan/build/Text-SenseClusters-1.03-FMoSjn/Toolkit/evaluate/format_clusters.pl
> line 309, <SCON> line 5938. (when it reaches the last line of senseval2
> file).
>
> I'm thinking that the context used are wrong... so my question are:
> 1) do I have to put in the context only the extracted entities or the
> relations?
> 2) Do the contexts must be in the same number of clustered elements?
> 3) If nothing is (theoretically) wrong, what should be the error in the
> sense-eval file?
>
> I'm waiting for your response...
> Thank you for the attention and I hope that you can help us to complete our
> research.
>
>
> 2014-10-23 16:02 GMT+02:00 Stefano Silvestri <ste...@gm...>:
>>
>> Hi Ted and thanks.
>>
>> The PoS tagging, entity recognition, feature extraction and the clustering
>> tasks have been created with our system (not Senseclusters) - still in
>> developement.
>> Now I'm trying to use the cluster_labeling module of SenseClusters to show
>> that we have found, in a unsupervised approach, the relation between medical
>> entities in the clinical records (i.e. diabetes mellitus <> glycemia) and
>> have, in this way, some labels for the clusters.
>>
>> I'm now writing the code to create the context files and then I'll run the
>> experiments on cluster labeling. I'll let you know in a few days if
>> everything worked well and, in case of a new publication, I'll cite your
>> great work.
>>
>> I'm sure that I will ask some more things in the next days, so I thank you
>> in advance.
>> Stefano Silvestri
>>
>>
>> 2014-10-23 15:07 GMT+02:00 Ted Pedersen <dul...@gm...>:
>>>
>>> Hi Stefano,
>>>
>>> This sounds like an interesting project, and it's good to know
>>> SenseClusters is proving to be useful. See my responses inline...
>>>
>>> On Wed, Oct 22, 2014 at 5:58 AM, Stefano Silvestri
>>> <ste...@gm...> wrote:
>>> > I've used a clustering techniques to discover, in an unsupervised way,
>>> > relations between medical entities contained in a large collection of
>>> > anonymized medical records, in a reserch project of University of
>>> > Neaples.
>>> > The data set is composed by a large set of features - all the results
>>> > will
>>> > be shortly published on a journal.
>>> >
>>> > The next step in the development of our system is performing an
>>> > unsupervised
>>> > cluster (relation) labeling. To do that, I think to try the
>>> > clusterlabeling
>>> > module from Senseclusters. For creating the input to clusterlabeling I
>>> > have
>>> > to use format_clusters module with --context option and now I have some
>>> > problems.
>>> >
>>> > I have already produced a cluto-style cluster solution file (no problem
>>> > for
>>> > that) from my system.
>>> >
>>> > The rlabel file, if I'm right, is a file containing the explicit
>>> > corresponding name of each entity in the cluster (in my case the
>>> > relation).
>>> > Is that right?
>>>
>>> Yes, rlabel shows the cluster to which each instance has been assigned.
>>>
>>> >
>>> > And now the problems about the context file...
>>> > It should be in senseval2 format. My experimental assesment is made of
>>> > a
>>> > plain text files - so I should use plain text to headless senseval2
>>> > utility.
>>> >
>>> > I have some questions.
>>> >
>>> > 1) Does the context file have to put together all my input files (the
>>> > medical records) in one large file (and each context must correspond to
>>> > a
>>> > medical record)?
>>>
>>> Yes, the input for each run of SenseClusters should be a single file
>>> with all your contexts included.
>>>
>>> >
>>> > 2) Does the contexts be headless, or I have to tag (<head></head>) all
>>> > the
>>> > entities (medical names) in input?
>>>
>>> Your contexts can be headless, and so there is no need to include
>>> <head> tags in your contexts.
>>>
>>> >
>>> > 3) Are other costrains in the context files (formatting, tags, or
>>> > other)?
>>> >
>>>
>>> There shouldn't be. The output from text2sval.pl should be acceptable
>>> for input "as is".
>>>
>>> > In case of success of the experiments, of course, I'll credit and cite
>>> > the
>>> > Senseclusters project.
>>> >
>>> > PS - my system works on italian language.
>>>
>>> That's great! We'd be happy to answer further questions as they arise,
>>> and will be curious to know how things work out!
>>>
>>> Good luck,
>>> Ted
>>>
>>> >
>>> > Thanks for response,
>>> > Stefano Silvestri,
>>> > NLP researcher at University of Neaples "Federico II"
>>> >
>>> >
>>> > ------------------------------------------------------------------------------
>>> > Comprehensive Server Monitoring with Site24x7.
>>> > Monitor 10 servers for $9/Month.
>>> > Get alerted through email, SMS, voice calls or mobile push
>>> > notifications.
>>> > Take corrective actions from your mobile device.
>>> > http://p.sf.net/sfu/Zoho
>>> > _______________________________________________
>>> > senseclusters-users mailing list
>>> > sen...@li...
>>> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>>> >
>>>
>>>
>>>
>>> --
>>> Ted Pedersen
>>> http://www.d.umn.edu/~tpederse
>>>
>>>
>>> ------------------------------------------------------------------------------
>>> _______________________________________________
>>> senseclusters-users mailing list
>>> sen...@li...
>>> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>>
>>
>
>
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Re: [Senseclusters-users] Unsupervided Relation labeling

[Stefano S. <ste...@gm...>]

Hi Ted,
as described in the previous email, I've launched my experiment. As said,
the final step of my pipeline is the cluster labeling, using Sensclusters.
I want to remember to you that the system performs an unsupervised relation
extraction from the entities found in 988 clinical records (the entities
have been extracted through UMLS databases and we cluster the couples of
entities).

To integrate Sunslusters cluster_label in our system, I've produced a
cluto-style output for the clustering results (around 160000 elements) and
an rlabel file (same number), with the list of all the clustered elements.
At this point, I have problems in running format_cluster.

To perform the labeling, I need the the format_cluster's output, generated
with the --context option. So, I've created a senseval-2 file with
text2sval.pl. The input file of text2sval is a plain text with each whole
clinical record on each line.
Naturally, each context contains more than one cluster members.
I haven't used any optional argument in text2sval.

This output has 988 instance ids. Now, when I try to launch format_cluster,
I have the following error, occurring during the parse of the senseval
file:
Use of uninitialized value $sentence in pattern match (m//) at
../.cpan/build/Text-SenseClusters-1.03-FMoSjn/Toolkit/evaluate/
format_clusters.pl line 309, <SCON> line 5938. (when it reaches the last
line of senseval2 file).

I'm thinking that the context used are wrong... so my question are:
1) do I have to put in the context only the extracted entities or the
relations?
2) Do the contexts must be in the same number of clustered elements?
3) If nothing is (theoretically) wrong, what should be the error in the
sense-eval file?

I'm waiting for your response...
Thank you for the attention and I hope that you can help us to complete our
research.


2014-10-23 16:02 GMT+02:00 Stefano Silvestri <ste...@gm...>:

> Hi Ted and thanks.
>
> The PoS tagging, entity recognition, feature extraction and the clustering
> tasks have been created with our system (not Senseclusters) - still in
> developement.
> Now I'm trying to use the cluster_labeling module of SenseClusters to show
> that we have found, in a unsupervised approach, the relation between
> medical entities in the clinical records (i.e. diabetes mellitus <>
> glycemia) and have, in this way, some labels for the clusters.
>
> I'm now writing the code to create the context files and then I'll run the
> experiments on cluster labeling. I'll let you know in a few days if
> everything worked well and, in case of a new publication, I'll cite your
> great work.
>
> I'm sure that I will ask some more things in the next days, so I thank you
> in advance.
> Stefano Silvestri
>
>
> 2014-10-23 15:07 GMT+02:00 Ted Pedersen <dul...@gm...>:
>
>> Hi Stefano,
>>
>> This sounds like an interesting project, and it's good to know
>> SenseClusters is proving to be useful. See my responses inline...
>>
>> On Wed, Oct 22, 2014 at 5:58 AM, Stefano Silvestri
>> <ste...@gm...> wrote:
>> > I've used a clustering techniques to discover, in an unsupervised way,
>> > relations between medical entities contained in a large collection of
>> > anonymized medical records, in a reserch project of University of
>> Neaples.
>> > The data set is composed by a large set of features - all the results
>> will
>> > be shortly published on a journal.
>> >
>> > The next step in the development of our system is performing an
>> unsupervised
>> > cluster (relation) labeling. To do that, I think to try the
>> clusterlabeling
>> > module from Senseclusters. For creating the input to clusterlabeling I
>> have
>> > to use format_clusters module with --context option and now I have some
>> > problems.
>> >
>> > I have already produced a cluto-style cluster solution file (no problem
>> for
>> > that) from my system.
>> >
>> > The rlabel file, if I'm right, is a file containing the explicit
>> > corresponding name of each entity in the cluster (in my case the
>> relation).
>> > Is that right?
>>
>> Yes, rlabel shows the cluster to which each instance has been assigned.
>>
>> >
>> > And now the problems about the context file...
>> > It should be in senseval2 format. My experimental assesment is made of a
>> > plain text files - so I should use plain text to headless senseval2
>> utility.
>> >
>> > I have some questions.
>> >
>> > 1) Does the context file have to put together all my input files (the
>> > medical records) in one large file (and each context must correspond to
>> a
>> > medical record)?
>>
>> Yes, the input for each run of SenseClusters should be a single file
>> with all your contexts included.
>>
>> >
>> > 2) Does the contexts be headless, or I have to tag (<head></head>) all
>> the
>> > entities (medical names) in input?
>>
>> Your contexts can be headless, and so there is no need to include
>> <head> tags in your contexts.
>>
>> >
>> > 3) Are other costrains in the context files (formatting, tags, or
>> other)?
>> >
>>
>> There shouldn't be. The output from text2sval.pl should be acceptable
>> for input "as is".
>>
>> > In case of success of the experiments, of course, I'll credit and cite
>> the
>> > Senseclusters project.
>> >
>> > PS - my system works on italian language.
>>
>> That's great! We'd be happy to answer further questions as they arise,
>> and will be curious to know how things work out!
>>
>> Good luck,
>> Ted
>>
>> >
>> > Thanks for response,
>> > Stefano Silvestri,
>> > NLP researcher at University of Neaples "Federico II"
>> >
>> >
>> ------------------------------------------------------------------------------
>> > Comprehensive Server Monitoring with Site24x7.
>> > Monitor 10 servers for $9/Month.
>> > Get alerted through email, SMS, voice calls or mobile push
>> notifications.
>> > Take corrective actions from your mobile device.
>> > http://p.sf.net/sfu/Zoho
>> > _______________________________________________
>> > senseclusters-users mailing list
>> > sen...@li...
>> > https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>> >
>>
>>
>>
>> --
>> Ted Pedersen
>> http://www.d.umn.edu/~tpederse
>>
>>
>> ------------------------------------------------------------------------------
>> _______________________________________________
>> senseclusters-users mailing list
>> sen...@li...
>> https://lists.sourceforge.net/lists/listinfo/senseclusters-users
>>
>
>