infomap-nlp-users — General questions and discussion about how to use the software.

Re: [infomap-nlp-users] HI

[Xochitl A. <xo...@ho...>]

Hi Scott.
=20
I use:
=20
infomap-build -s /home/xoala/corpora/kjbible.txt kjbible -w  /home/xoala/wo=
rkindir
=20
=20
Thanks
Xochitl



> Date: Tue, 17 Apr 2007 16:11:25 -0700> From: ced...@gm...> To: xoal=
a...@ho...> Subject: Re: [infomap-nlp-users] HI> CC: infomap-nlp-users@l=
ists.sourceforge.net> > Can you please send the exact infomap-build command=
 that you used?> > > Scott> > On 4/17/07, Xochitl Alvarado <xoala@hotmail.c=
om> wrote:> >> > Hi guys,> >> > A lot of thanks for your help.> >> > Now I =
build the model using infomap-build command, but when I try to install> > t=
he model with infomap-install command I have the following error :> >> >> >=
 Using install control file> > "/home/jrandom/install/share/infomap-nlp/ins=
tall.control"> > Missing file "word2offset.db".> > Missing file "offset2wor=
d.db".> > Missing file "number2name.db".> > Missing file "number2name.dir".=
> > Missing file "number2name.pag".> > Missing file "art2offset.db".> > Mis=
sing file "offset2art.db"> >> > I look for the files in a working directory=
 that I difined but there aren't.> >> > Xochitl> >> > _____________________=
___________> > Env=EDa mensajes de correo electr=F3nico directamente a tu b=
log con MSN. Carga> > chistes, fotograf=EDas y muchas otras cosas. Es grati=
s.> > ---------------------------------------------------------------------=
----> > This SF.net email is sponsored by DB2 Express> > Download DB2 Expre=
ss C - the FREE version of DB2 express and take> > control of your XML. No =
limits. Just data. Click to get it now.> > http://sourceforge.net/powerbar/=
db2/> > _______________________________________________> > infomap-nlp-user=
s mailing list> > inf...@li...> > https://lists.=
sourceforge.net/lists/listinfo/infomap-nlp-users> >> >
_________________________________________________________________
Descubre Live.com - tu mundo en l=EDnea reunido: noticias, deportes, el tie=
mpo, y mucho m=E1s.
http://www.live.com/getstarted=

Re: [infomap-nlp-users] HI

[Scott C. <ced...@gm...>]

Can you please send the exact infomap-build command that you used?


             Scott

On 4/17/07, Xochitl Alvarado <xo...@ho...> wrote:
>
> Hi guys,
>
> A lot of thanks for your help.
>
> Now I build the model using infomap-build command, but when I try to inst=
all
> the model with infomap-install command I have the following error :
>
>
> Using install control file
> "/home/jrandom/install/share/infomap-nlp/install.control"
> Missing file "word2offset.db".
> Missing file "offset2word.db".
> Missing file "number2name.db".
> Missing file "number2name.dir".
> Missing file "number2name.pag".
> Missing file "art2offset.db".
> Missing file "offset2art.db"
>
> I look for the files in a working directory that I difined but there aren=
't.
>
> Xochitl
>
> ________________________________
> Env=EDa mensajes de correo electr=F3nico directamente a tu blog con MSN. =
Carga
> chistes, fotograf=EDas y muchas otras cosas. Es gratis.
> -------------------------------------------------------------------------
> This SF.net email is sponsored by DB2 Express
> Download DB2 Express C - the FREE version of DB2 express and take
> control of your XML. No limits. Just data. Click to get it now.
> http://sourceforge.net/powerbar/db2/
> _______________________________________________
> infomap-nlp-users mailing list
> inf...@li...
> https://lists.sourceforge.net/lists/listinfo/infomap-nlp-users
>
>

Re: [infomap-nlp-users] HI

[Xochitl A. <xo...@ho...>]

Hi guys, A lot of thanks for your help. Now I build the model using infomap=
-build command, but when I try to install the model with infomap-install co=
mmand I have the following error :  Using install control file "/home/jrand=
om/install/share/infomap-nlp/install.control"Missing file "word2offset.db".=
Missing file "offset2word.db".Missing file "number2name.db".Missing file "n=
umber2name.dir".Missing file "number2name.pag".Missing file "art2offset.db"=
.Missing file "offset2art.db" I look for the files in a working directory t=
hat I difined but there aren't. Xochitl
_________________________________________________________________
Descubre Live.com - tu propia p=E1gina de inicio, personalizada para ver r=
=E1pidamente todo lo que te interesa en un mismo sitio.
http://www.live.com/getstarted=

Re: [infomap-nlp-users] One question more

[Scott C. <ced...@gm...>]

Yes.  Use the "-w" option to "associate".

On 4/17/07, Xochitl Alvarado <xo...@ho...> wrote:
>
> Hi ,
>
> I have another question for you.  I need to find similar terms to a user =
query. Does infomap software let us to find similar tems to a user query???
>
> Thanks for your help.
>
> Xochitl
>
>
>
>
> ----------------------------------------
> > From: xo...@ho...
> > To: ced...@gm...; inf...@li...
> > Subject: RE: HI
> > Date: Wed, 11 Apr 2007 11:42:28 +0000
> >
> >
> > Hi guys,
> >
> > A lot of thanks for your help.
> >
> > Now I build the model using infomap-build command, but when I try to in=
stall the model with infomap-install command I have the following error :
> >
> >
> > Using install control file "/home/jrandom/install/share/infomap-nlp/ins=
tall.control"
> > Missing file "word2offset.db".
> > Missing file "offset2word.db".
> > Missing file "number2name.db".
> > Missing file "number2name.dir".
> > Missing file "number2name.pag".
> > Missing file "art2offset.db".
> > Missing file "offset2art.db"
> >
> > I look for the files in a working directory that I difined but there ar=
en't.
> >
> > Xochitl
> >
> >
> > ----------------------------------------
> > > Date: Tue, 10 Apr 2007 10:12:56 -0700
> > > From: ced...@gm...
> > > To: xo...@ho...
> > > Subject: Re: HI
> > > CC: inf...@li...
> > >
> > > Hi Xochitl,
> > >
> > >     You need to find the prepare_corpus command and add the directory
> > > containing it to your path.  prepare_corpus is probably in
> > > /usr/local/bin, unless you specified the "--prefix" or "--binprefix"
> > > arguments to configure, in which case it'll be where you specified.
> > > So you'll need to do something like:
> > >
> > > $ export PATH=3D/usr/local/bin:$PATH
> > >
> > > in bash, or
> > >
> > > % setenv PATH /usr/local/bin:$PATH
> > >
> > > in csh/tcsh.  You'll probably want to add the appropriate version of
> > > this to your login script, e.g. ~/.bashrc for bash.
> > >
> > >     Hope that helps.
> > >
> > >
> > >                Scott
> > >
> > > P.S. Can you please subscribe to the infomap-nlp-users mailing list i=
f
> > > you haven't already, and post future questions there.  I'll still get
> > > them, but it'll give other people the chance to help as well, and mak=
e
> > > the help offered available to others via the mailing list archives.
> > > You can subscribe here:
> > >
> > >             https://lists.sourceforge.net/lists/listinfo/infomap-nlp-=
users
> > >
> > >
> > >
> > > On 4/10/07, Xochitl Alvarado  wrote:
> > > >
> > > > Hi Scott,
> > > >
> > > > I have a problem when I try to install the model.
> > > >
> > > > The error is:
> > > >
> > > > Building target: /tmp/root/infomap_working_dir//wordlist
> > > > Prerequisites:
> > > > mar abr 10 04:30:28 CDT 2007
> > > > ..................................................
> > > > prepare_corpus \
> > > > -cdir "." \
> > > >         -mdir "/tmp/root/infomap_working_dir/" \
> > > >         -cfile "" \
> > > >         -fnfile "" \
> > > >         -chfile "/usr/local/share/infomap-nlp/valid_chars.en" \
> > > >         -slfile "/usr/local/share/infomap-nlp/stop.list" \
> > > >         -rptfile ""
> > > > /bin/sh: prepare_corpus: command not found
> > > > make: *** [/tmp/root/infomap_working_dir//wordlist] Error 127
> > > >
> > > > Can you help me with this error , please?
> > > >
> > > > Thanks a lot for your help
> > > >
> > > >
> > > >
> > > > _________________________________________________________________
> > > > Descubre Live.com - tu propia p=E1gina de inicio, personalizada par=
a ver r=E1pidamente todo lo que te interesa en un mismo sitio.
> > > > http://www.live.com/getstarted
> >
> > _________________________________________________________________
> > Descubre Live.com - tu propia p=E1gina de inicio, personalizada para ve=
r r=E1pidamente todo lo que te interesa en un mismo sitio.
> > http://www.live.com/getstarted
>
> _________________________________________________________________
> Descubre Live.com - tu mundo en l=EDnea reunido: noticias, deportes, el t=
iempo, y mucho m=E1s.
> http://www.live.com/getstarted
> -------------------------------------------------------------------------
> This SF.net email is sponsored by DB2 Express
> Download DB2 Express C - the FREE version of DB2 express and take
> control of your XML. No limits. Just data. Click to get it now.
> http://sourceforge.net/powerbar/db2/
> _______________________________________________
> infomap-nlp-users mailing list
> inf...@li...
> https://lists.sourceforge.net/lists/listinfo/infomap-nlp-users
>

[infomap-nlp-users] One question more

[Xochitl A. <xo...@ho...>]

Hi ,

I have another question for you.  I need to find similar terms to a user qu=
ery. Does infomap software let us to find similar tems to a user query???

Thanks for your help.

Xochitl




----------------------------------------
> From: xo...@ho...
> To: ced...@gm...; inf...@li...
> Subject: RE: HI
> Date: Wed, 11 Apr 2007 11:42:28 +0000
>=20
>=20
> Hi guys,
>=20
> A lot of thanks for your help.
>=20
> Now I build the model using infomap-build command, but when I try to inst=
all the model with infomap-install command I have the following error :
>=20
>=20
> Using install control file "/home/jrandom/install/share/infomap-nlp/insta=
ll.control"
> Missing file "word2offset.db".
> Missing file "offset2word.db".
> Missing file "number2name.db".
> Missing file "number2name.dir".
> Missing file "number2name.pag".
> Missing file "art2offset.db".
> Missing file "offset2art.db"
>=20
> I look for the files in a working directory that I difined but there aren=
't.
>=20
> Xochitl
>=20
>=20
> ----------------------------------------
> > Date: Tue, 10 Apr 2007 10:12:56 -0700
> > From: ced...@gm...
> > To: xo...@ho...
> > Subject: Re: HI
> > CC: inf...@li...
> >=20
> > Hi Xochitl,
> >=20
> >     You need to find the prepare_corpus command and add the directory
> > containing it to your path.  prepare_corpus is probably in
> > /usr/local/bin, unless you specified the "--prefix" or "--binprefix"
> > arguments to configure, in which case it'll be where you specified.
> > So you'll need to do something like:
> >=20
> > $ export PATH=3D/usr/local/bin:$PATH
> >=20
> > in bash, or
> >=20
> > % setenv PATH /usr/local/bin:$PATH
> >=20
> > in csh/tcsh.  You'll probably want to add the appropriate version of
> > this to your login script, e.g. ~/.bashrc for bash.
> >=20
> >     Hope that helps.
> >=20
> >=20
> >                Scott
> >=20
> > P.S. Can you please subscribe to the infomap-nlp-users mailing list if
> > you haven't already, and post future questions there.  I'll still get
> > them, but it'll give other people the chance to help as well, and make
> > the help offered available to others via the mailing list archives.
> > You can subscribe here:
> >=20
> >             https://lists.sourceforge.net/lists/listinfo/infomap-nlp-us=
ers
> >=20
> >=20
> >=20
> > On 4/10/07, Xochitl Alvarado  wrote:
> > >
> > > Hi Scott,
> > >
> > > I have a problem when I try to install the model.
> > >
> > > The error is:
> > >
> > > Building target: /tmp/root/infomap_working_dir//wordlist
> > > Prerequisites:
> > > mar abr 10 04:30:28 CDT 2007
> > > ..................................................
> > > prepare_corpus \
> > > -cdir "." \
> > >         -mdir "/tmp/root/infomap_working_dir/" \
> > >         -cfile "" \
> > >         -fnfile "" \
> > >         -chfile "/usr/local/share/infomap-nlp/valid_chars.en" \
> > >         -slfile "/usr/local/share/infomap-nlp/stop.list" \
> > >         -rptfile ""
> > > /bin/sh: prepare_corpus: command not found
> > > make: *** [/tmp/root/infomap_working_dir//wordlist] Error 127
> > >
> > > Can you help me with this error , please?
> > >
> > > Thanks a lot for your help
> > >
> > >
> > >
> > > _________________________________________________________________
> > > Descubre Live.com - tu propia p=E1gina de inicio, personalizada para =
ver r=E1pidamente todo lo que te interesa en un mismo sitio.
> > > http://www.live.com/getstarted
>=20
> _________________________________________________________________
> Descubre Live.com - tu propia p=E1gina de inicio, personalizada para ver =
r=E1pidamente todo lo que te interesa en un mismo sitio.
> http://www.live.com/getstarted

_________________________________________________________________
Descubre Live.com - tu mundo en l=EDnea reunido: noticias, deportes, el tie=
mpo, y mucho m=E1s.
http://www.live.com/getstarted=

Re: [infomap-nlp-users] HI

[Xochitl A. <xo...@ho...>]

Hi guys,

A lot of thanks for your help.

Now I build the model using infomap-build command, but when I try to instal=
l the model with infomap-install command I have the following error :


Using install control file "/home/jrandom/install/share/infomap-nlp/install=
.control"
Missing file "word2offset.db".
Missing file "offset2word.db".
Missing file "number2name.db".
Missing file "number2name.dir".
Missing file "number2name.pag".
Missing file "art2offset.db".
Missing file "offset2art.db"

I look for the files in a working directory that I difined but there aren't=
.

Xochitl


----------------------------------------
> Date: Tue, 10 Apr 2007 10:12:56 -0700
> From: ced...@gm...
> To: xo...@ho...
> Subject: Re: HI
> CC: inf...@li...
>=20
> Hi Xochitl,
>=20
>     You need to find the prepare_corpus command and add the directory
> containing it to your path.  prepare_corpus is probably in
> /usr/local/bin, unless you specified the "--prefix" or "--binprefix"
> arguments to configure, in which case it'll be where you specified.
> So you'll need to do something like:
>=20
> $ export PATH=3D/usr/local/bin:$PATH
>=20
> in bash, or
>=20
> % setenv PATH /usr/local/bin:$PATH
>=20
> in csh/tcsh.  You'll probably want to add the appropriate version of
> this to your login script, e.g. ~/.bashrc for bash.
>=20
>     Hope that helps.
>=20
>=20
>                Scott
>=20
> P.S. Can you please subscribe to the infomap-nlp-users mailing list if
> you haven't already, and post future questions there.  I'll still get
> them, but it'll give other people the chance to help as well, and make
> the help offered available to others via the mailing list archives.
> You can subscribe here:
>=20
>             https://lists.sourceforge.net/lists/listinfo/infomap-nlp-user=
s
>=20
>=20
>=20
> On 4/10/07, Xochitl Alvarado  wrote:
> >
> > Hi Scott,
> >
> > I have a problem when I try to install the model.
> >
> > The error is:
> >
> > Building target: /tmp/root/infomap_working_dir//wordlist
> > Prerequisites:
> > mar abr 10 04:30:28 CDT 2007
> > ..................................................
> > prepare_corpus \
> > -cdir "." \
> >         -mdir "/tmp/root/infomap_working_dir/" \
> >         -cfile "" \
> >         -fnfile "" \
> >         -chfile "/usr/local/share/infomap-nlp/valid_chars.en" \
> >         -slfile "/usr/local/share/infomap-nlp/stop.list" \
> >         -rptfile ""
> > /bin/sh: prepare_corpus: command not found
> > make: *** [/tmp/root/infomap_working_dir//wordlist] Error 127
> >
> > Can you help me with this error , please?
> >
> > Thanks a lot for your help
> >
> >
> >
> > _________________________________________________________________
> > Descubre Live.com - tu propia p=E1gina de inicio, personalizada para ve=
r r=E1pidamente todo lo que te interesa en un mismo sitio.
> > http://www.live.com/getstarted

_________________________________________________________________
Descubre Live.com - tu propia p=E1gina de inicio, personalizada para ver r=
=E1pidamente todo lo que te interesa en un mismo sitio.
http://www.live.com/getstarted=

Re: [infomap-nlp-users] HI

[Scott C. <ced...@gm...>]

Hi Xochitl,

    You need to find the prepare_corpus command and add the directory
containing it to your path.  prepare_corpus is probably in
/usr/local/bin, unless you specified the "--prefix" or "--binprefix"
arguments to configure, in which case it'll be where you specified.
So you'll need to do something like:

$ export PATH=3D/usr/local/bin:$PATH

in bash, or

% setenv PATH /usr/local/bin:$PATH

in csh/tcsh.  You'll probably want to add the appropriate version of
this to your login script, e.g. ~/.bashrc for bash.

    Hope that helps.


               Scott

P.S. Can you please subscribe to the infomap-nlp-users mailing list if
you haven't already, and post future questions there.  I'll still get
them, but it'll give other people the chance to help as well, and make
the help offered available to others via the mailing list archives.
You can subscribe here:

            https://lists.sourceforge.net/lists/listinfo/infomap-nlp-users



On 4/10/07, Xochitl Alvarado <xo...@ho...> wrote:
>
> Hi Scott,
>
> I have a problem when I try to install the model.
>
> The error is:
>
> Building target: /tmp/root/infomap_working_dir//wordlist
> Prerequisites:
> mar abr 10 04:30:28 CDT 2007
> ..................................................
> prepare_corpus \
> -cdir "." \
>         -mdir "/tmp/root/infomap_working_dir/" \
>         -cfile "" \
>         -fnfile "" \
>         -chfile "/usr/local/share/infomap-nlp/valid_chars.en" \
>         -slfile "/usr/local/share/infomap-nlp/stop.list" \
>         -rptfile ""
> /bin/sh: prepare_corpus: command not found
> make: *** [/tmp/root/infomap_working_dir//wordlist] Error 127
>
> Can you help me with this error , please?
>
> Thanks a lot for your help
>
>
>
> _________________________________________________________________
> Descubre Live.com - tu propia p=E1gina de inicio, personalizada para ver =
r=E1pidamente todo lo que te interesa en un mismo sitio.
> http://www.live.com/getstarted

[infomap-nlp-users] HI

[Xochitl A. <xo...@ho...>]

 Hi,
=20
 I have a problem when I try to install the model.=20
=20
 The error is:=20
 Building target: /tmp/root/infomap_working_dir//wordlist
Prerequisites:
 mar abr 10 04:30:28 CDT 2007
 ..................................................
 prepare_corpus \
 -cdir "." \
         -mdir "/tmp/root/infomap_working_dir/" \
         -cfile "" \
         -fnfile "" \
         -chfile "/usr/local/share/infomap-nlp/valid_chars.en" \
         -slfile "/usr/local/share/infomap-nlp/stop.list" \
         -rptfile ""
 /bin/sh: prepare_corpus: command not found

 make: *** [/tmp/root/infomap_working_dir//wordlist] Error 127
=20
 Can you help me with this error , please?
=20
 Thanks a lot for your help

Xochitl
_________________________________________________________________
Descubre Live.com - tu mundo en l=EDnea reunido: noticias, deportes, el tie=
mpo, y mucho m=E1s.
http://www.live.com/getstarted=

[infomap-nlp-users] A question

[Xochitl A. <xo...@ho...>]

Dear Sir,
=20
I am writing to you beacuse I have a problem with infomap software, I can't=
 built the model, I try to follow the example of the tutorial with the Gute=
nberg Project corpus.
=20
The problem is after I type "make" command, i find many "Makefile" in many =
places I don't know with one I have to change in order to built a model.
=20
Hope to hear from you soon.RegardsXochitl=20
=20
=20
=20
=20
_________________________________________________________________
Descubre Live.com - tu propia p=E1gina de inicio, personalizada para ver r=
=E1pidamente todo lo que te interesa en un mismo sitio.
http://www.live.com/getstarted=

Re: [infomap-nlp-users] Problems getting INFOMAP going

[Scott C. <ced...@gm...>]

Hi Sverker,

     Yes, I believe that the vectors *are* normalized post-SVD.  I
don't know offhand where this happens; I'm CC'ing the
infomap-nlp-users list in the hope that someone else does.  Otherwise
I'll try to figure this out when I get a chance... please prod me if
you haven't heard anything in a couple of days.


                             Scott

On 3/25/07, Sverker Sikstr=F6m <sve...@lu...> wrote:
>  Hi Scott!
>
>  I  think we have been in communication before about INFOMAP. I now have =
a
> the following specific question related to the output of INFOMAP. The wor=
d
> vectors that you get out of associate all seems to be normalized so the
> length of them are 1. However, I think that the SVD a algorithm (that i
> think INFOMAP is built on) do not neccessarily produce outputs where the
> vector lenght are 1, so I am inferring that somewhere in the program the
> vectors are normalized to one?! (please correct me if I am wrong!). I wou=
ld
> like to have access to length of the word vectors before normalization. D=
o
> you know how to do that? I looked into the associate c-code I could not f=
ind
> the normalization there so perhaps it is hidden somewhere in the
> 'infomap-build' command? I would appreciate an answer,
>
>  Sincerely, Sverker

Re: [infomap-nlp-users] A question

[Dominic W. <wi...@ma...>]

Hi Xochitl,

In case it helps, I wrote a post to the help forum a while ago that  
summarized some of the problems / solutions people have encountered  
with getting Infomap to talk to appropriate dbm packages:
http://sourceforge.net/forum/forum.php?thread_id=1566277&forum_id=343517

Best wishes,
Dominic

On Mar 19, 2007, at 4:16 PM, Scott Cederberg wrote:

> Hi Xochitl,
>
>    You should probably install gdbm, and its ndbm compatibility
> library. If you tell me which operating system/distro you are using I
> can probably give you more specific instructions.
>
>
>                         Scott
>
> On 3/19/07, xo...@dl... <xo...@dl...> wrote:
>> Dear Sir or Madam,
>>
>> I am student of Alacant University, Spain. I try to install  
>> infomap software,
>> but I can't. I get the following error:
>>  ndbm.h usability... no
>> checking ndbm.h presence... no
>> checking for ndbm.h... no
>> checking gdbm/ndbm.h usability... no
>> checking gdbm/ndbm.h presence... no
>> checking for gdbm/ndbm.h... no
>> configure: WARNING: configure has detected that you do not have an
>>                         appropriate ndbm header file installed on  
>> your
>>                         system.  Compilation cannot proceed.   
>> Please install
>>                         ndbm.h or gdbm/ndbm.h on your system, or  
>> write to
>>                         inf...@li...  
>> for advice.
>> checking for an ANSI C-conforming const... yes
>>
>> Do you know where I can get NDBM library???
>>
>> Thanks
>>
>>
>> Regards,
>> Xochitl Alvarado
>>
>> --------------------------------------------------------------------- 
>> ----
>> Take Surveys. Earn Cash. Influence the Future of IT
>> Join SourceForge.net's Techsay panel and you'll get the chance to  
>> share your
>> opinions on IT & business topics through brief surveys-and earn cash
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>> infomap-nlp-users mailing list
>> inf...@li...
>> https://lists.sourceforge.net/lists/listinfo/infomap-nlp-users
>>
>
> ---------------------------------------------------------------------- 
> ---
> Take Surveys. Earn Cash. Influence the Future of IT
> Join SourceForge.net's Techsay panel and you'll get the chance to  
> share your
> opinions on IT & business topics through brief surveys-and earn cash
> http://www.techsay.com/default.php? 
> page=join.php&p=sourceforge&CID=DEVDEV
> _______________________________________________
> infomap-nlp-users mailing list
> inf...@li...
> https://lists.sourceforge.net/lists/listinfo/infomap-nlp-users
>

Re: [infomap-nlp-users] A question

[Scott C. <ced...@gm...>]

Hi Xochitl,

   You should probably install gdbm, and its ndbm compatibility
library. If you tell me which operating system/distro you are using I
can probably give you more specific instructions.


                        Scott

On 3/19/07, xo...@dl... <xo...@dl...> wrote:
> Dear Sir or Madam,
>
> I am student of Alacant University, Spain. I try to install infomap software,
> but I can't. I get the following error:
>  ndbm.h usability... no
> checking ndbm.h presence... no
> checking for ndbm.h... no
> checking gdbm/ndbm.h usability... no
> checking gdbm/ndbm.h presence... no
> checking for gdbm/ndbm.h... no
> configure: WARNING: configure has detected that you do not have an
>                         appropriate ndbm header file installed on your
>                         system.  Compilation cannot proceed.  Please install
>                         ndbm.h or gdbm/ndbm.h on your system, or write to
>                         inf...@li... for advice.
> checking for an ANSI C-conforming const... yes
>
> Do you know where I can get NDBM library???
>
> Thanks
>
>
> Regards,
> Xochitl Alvarado
>
> -------------------------------------------------------------------------
> Take Surveys. Earn Cash. Influence the Future of IT
> Join SourceForge.net's Techsay panel and you'll get the chance to share your
> opinions on IT & business topics through brief surveys-and earn cash
> http://www.techsay.com/default.php?page=join.php&p=sourceforge&CID=DEVDEV
> _______________________________________________
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> inf...@li...
> https://lists.sourceforge.net/lists/listinfo/infomap-nlp-users
>

[infomap-nlp-users] =?iso-8859-1?q?A_question?=

[<xo...@dl...>]

Dear Sir or Madam,

I am student of Alacant University, Spain. I try to install infomap software,
but I can't. I get the following error:
 ndbm.h usability... no
checking ndbm.h presence... no
checking for ndbm.h... no
checking gdbm/ndbm.h usability... no
checking gdbm/ndbm.h presence... no
checking for gdbm/ndbm.h... no
configure: WARNING: configure has detected that you do not have an
                        appropriate ndbm header file installed on your
                        system.  Compilation cannot proceed.  Please install
                        ndbm.h or gdbm/ndbm.h on your system, or write to
                        inf...@li... for advice.
checking for an ANSI C-conforming const... yes

Do you know where I can get NDBM library???

Thanks 


Regards,
Xochitl Alvarado

Re: [infomap-nlp-users] infomap-build crashes on 64 bit machines

[Scott C. <ced...@gm...>]

Hi Xiaoyi,

   Yes, this is a known issue with Infomap on 64-bit machines.  I
believe it stems from the linear algebra library that Infomap uses to
perform Singular Value Decomposition (SVDPACKC).

   I'd like to get around to fixing this eventually... if anyone out
there has a fix, please chime in.


                     Scott

On 2/27/07, Xiaoyi Ma <xm...@ld...> wrote:
> Hi,
>
> I'm running Redhat Linux AS version 4 on and encountered the follow problem. infomap-build causes segmentation fault and crashed.
>
> I installed infomap on my laptop running fedora core 6, and I ran the infomap-build on the same set of data, there was no problem.
>
> I searched the infomap mailing list and found many people have posted the same problems, but there is no answers.
>
> The following lines document the problem, which is essentially the same thing many people have posted before. Please let me know if you have a wordaround or patched code that I can take advantage of.
>
> Thanks.
>
> $ uname -a
> Linux beast2.ldc.upenn.edu 2.6.9-5.ELsmp #1 SMP Wed Jan 5 19:29:47 EST 2005 x86_64 x86_64 x86_64 GNU/Linux
>
> $ infomap-build -s afe199605 afe199605
> ...
> ...
> ...
>
>  This is svdinterface.
>
>   Writing to: left
>   Writing to: rght
>   Writing to: sing
>   Writing to: svd_diag
>   Reading: indx
>   Reading: indx
>   Reading: coll
> /bin/sh: line 1: 22517 Segmentation fault      svdinterface -singvals 100 -iter 100
> make: *** [/home/myhome/infomap/informap_models/afe199605/left] Error 139
>
> -------------------------------------------------------------------------
> Take Surveys. Earn Cash. Influence the Future of IT
> Join SourceForge.net's Techsay panel and you'll get the chance to share your
> opinions on IT & business topics through brief surveys-and earn cash
> http://www.techsay.com/default.php?page=join.php&p=sourceforge&CID=DEVDEV
> _______________________________________________
> infomap-nlp-users mailing list
> inf...@li...
> https://lists.sourceforge.net/lists/listinfo/infomap-nlp-users
>

[infomap-nlp-users] infomap-build crashes on 64 bit machines

[Xiaoyi Ma <xm...@ld...>]

Hi,

I'm running Redhat Linux AS version 4 on and encountered the follow problem. infomap-build causes segmentation fault and crashed.

I installed infomap on my laptop running fedora core 6, and I ran the infomap-build on the same set of data, there was no problem.

I searched the infomap mailing list and found many people have posted the same problems, but there is no answers.

The following lines document the problem, which is essentially the same thing many people have posted before. Please let me know if you have a wordaround or patched code that I can take advantage of. 

Thanks.

$ uname -a
Linux beast2.ldc.upenn.edu 2.6.9-5.ELsmp #1 SMP Wed Jan 5 19:29:47 EST 2005 x86_64 x86_64 x86_64 GNU/Linux

$ infomap-build -s afe199605 afe199605
...
...
...

 This is svdinterface.

  Writing to: left
  Writing to: rght
  Writing to: sing
  Writing to: svd_diag
  Reading: indx
  Reading: indx
  Reading: coll
/bin/sh: line 1: 22517 Segmentation fault      svdinterface -singvals 100 -iter 100
make: *** [/home/myhome/infomap/informap_models/afe199605/left] Error 139

Re: [infomap-nlp-users] Fwd: [infomap-nlp-devel] FEWER THAN EXPECTED SINGULAR VALUES

[Rob M. <rm...@ma...>]

Hi,

For larger corpora, raising the number of iterations can help SVDPACK  
find more singular values, and also increases the accuracy of the  
smaller ones.

---
Rob Malouf <rm...@ma...>
Department of Linguistics and Asian/Middle Eastern Languages
San Diego State University


On Feb 12, 2007, at 9:37 AM, Dominic Widdows wrote:

> Dear Marie,
>
> I've seen this happen a few times with smaller corpora.
>
> I think that the basic reason is that sometimes the singular value
> decomposition "completes" with fewer values than you asked for. With
> smaller matrices, this is reasonably obvious - there's no point
> asking for a 100-dimensional simplification of a matrix that has
> fewer than 100 independent rows or columns. So the number of singular
> values can't exceed the rank of the matrix. I don't really understand
> what effect this has within the SVDPACK that infomap uses - all I've
> seen is the warning message, and that for smaller corpora, the
> reduced vectors often contain a lot of trailing zeros.
>
> But the models still work - it's a warning, not an error as such. Is
> this your experience or are you actually unable to search the models
> you create?
>
> Best wishes,
> Dominic
>
>
> On Feb 9, 2007, at 12:46 PM, Scott Cederberg wrote:
>
>> ---------- Forwarded message ----------
>> From: Marie Gustafsson <mag...@ps...>
>> Date: Feb 9, 2007 4:26 AM
>> Subject: [infomap-nlp-devel] FEWER THAN EXPECTED SINGULAR VALUES
>> To: inf...@li...,
>> "inf...@li..."@smtp3.su.se
>>
>>
>>
>>  Dear all,
>>
>>  While infomap-build -s, during svd.interface I get this message:
>>
>>    FEWER THAN EXPECTED SINGULAR VALUES
>>
>>  Anyone who can help me solve this problem?
>>
>>  Best regards,
>>  Marie Gustafsson
>>
>>
>>
>>  ==================================================
>>  Building target: /home/sverker/infomap_models/test22/left
>>  Prerequisites: /home/sverker/infomap_models/test22/coll
>> /home/sverker/infomap_models/test22/indx
>>  Tue Jan 23 01:18:31 PST 2007
>>  ..................................................
>>  cd /home/sverker/infomap_models/test22 && rm -f svd_diag left \
>>                          rght sing
>>  cd /home/sverker/infomap_models/test22 && svdinterface \
>>          -singvals 100 \
>>          -iter 100
>>
>>    This is svdinterface.
>>
>>    Writing to: left
>>    Writing to: rght
>>    Writing to: sing
>>    Writing to: svd_diag
>>    Reading: indx
>>    Reading: indx
>>    Reading: coll
>>
>>    FEWER THAN EXPECTED SINGULAR VALUES
>>  ..................................................
>>  Finishing target: /home/sverker/infomap_models/test22/left
>>  ==================================================
>>
>>
>>  ==================================================
>>  Building target: /home/sverker/infomap_models/test22/wordvec.bin
>>  Prerequisites: /home/sverker/infomap_models/test22/left
>> /home/sverker/infomap_models/test22/dic
>>  Tue Jan 23 01:18:31 PST 2007
>>  ..................................................
>>  encode_wordvec \
>>          -m /home/sverker/infomap_models/test22
>>  Opening File for "r":
>>          "/home/sverker/infomap_models/test22/left"
>>  Opening File for "w":
>>          "/home/sverker/infomap_models/test22/wordvec.bin"
>>  Reading the dictionary...
>>  Opening File for "r":
>>          "/home/sverker/infomap_models/test22/dic"
>>  Initializing row indices...Done.
>>  ..................................................
>>  Finishing target: /home/sverker/infomap_models/test22/wordvec.bin
>>  ==================================================
>>
>>
>> --------------------------------------------------------------------- 
>> -
>> ---
>> Using Tomcat but need to do more? Need to support web services,
>> security?
>> Get stuff done quickly with pre-integrated technology to make your
>> job easier.
>> Download IBM WebSphere Application Server v.1.0.1 based on Apache
>> Geronimo
>> http://sel.as-us.falkag.net/sel?
>> cmd=lnk&kid=120709&bid=263057&dat=121642
>> _______________________________________________
>> infomap-nlp-devel mailing list
>> inf...@li...
>> https://lists.sourceforge.net/lists/listinfo/infomap-nlp-devel
>>
>> --------------------------------------------------------------------- 
>> -
>> ---
>> Using Tomcat but need to do more? Need to support web services,
>> security?
>> Get stuff done quickly with pre-integrated technology to make your
>> job easier.
>> Download IBM WebSphere Application Server v.1.0.1 based on Apache
>> Geronimo
>> http://sel.as-us.falkag.net/sel?
>> cmd=lnk&kid=120709&bid=263057&dat=121642
>> _______________________________________________
>> infomap-nlp-users mailing list
>> inf...@li...
>> https://lists.sourceforge.net/lists/listinfo/infomap-nlp-users
>>
>
>
> ---------------------------------------------------------------------- 
> ---
> Using Tomcat but need to do more? Need to support web services,  
> security?
> Get stuff done quickly with pre-integrated technology to make your  
> job easier.
> Download IBM WebSphere Application Server v.1.0.1 based on Apache  
> Geronimo
> http://sel.as-us.falkag.net/sel? 
> cmd=lnk&kid=120709&bid=263057&dat=121642
> _______________________________________________
> infomap-nlp-users mailing list
> inf...@li...
> https://lists.sourceforge.net/lists/listinfo/infomap-nlp-users

Re: [infomap-nlp-users] Fwd: [infomap-nlp-devel] FEWER THAN EXPECTED SINGULAR VALUES

[Dominic W. <wi...@ma...>]

Dear Marie,

I've seen this happen a few times with smaller corpora.

I think that the basic reason is that sometimes the singular value  
decomposition "completes" with fewer values than you asked for. With  
smaller matrices, this is reasonably obvious - there's no point  
asking for a 100-dimensional simplification of a matrix that has  
fewer than 100 independent rows or columns. So the number of singular  
values can't exceed the rank of the matrix. I don't really understand  
what effect this has within the SVDPACK that infomap uses - all I've  
seen is the warning message, and that for smaller corpora, the  
reduced vectors often contain a lot of trailing zeros.

But the models still work - it's a warning, not an error as such. Is  
this your experience or are you actually unable to search the models  
you create?

Best wishes,
Dominic


On Feb 9, 2007, at 12:46 PM, Scott Cederberg wrote:

> ---------- Forwarded message ----------
> From: Marie Gustafsson <mag...@ps...>
> Date: Feb 9, 2007 4:26 AM
> Subject: [infomap-nlp-devel] FEWER THAN EXPECTED SINGULAR VALUES
> To: inf...@li...,
> "inf...@li..."@smtp3.su.se
>
>
>
>  Dear all,
>
>  While infomap-build -s, during svd.interface I get this message:
>
>    FEWER THAN EXPECTED SINGULAR VALUES
>
>  Anyone who can help me solve this problem?
>
>  Best regards,
>  Marie Gustafsson
>
>
>
>  ==================================================
>  Building target: /home/sverker/infomap_models/test22/left
>  Prerequisites: /home/sverker/infomap_models/test22/coll
> /home/sverker/infomap_models/test22/indx
>  Tue Jan 23 01:18:31 PST 2007
>  ..................................................
>  cd /home/sverker/infomap_models/test22 && rm -f svd_diag left \
>                          rght sing
>  cd /home/sverker/infomap_models/test22 && svdinterface \
>          -singvals 100 \
>          -iter 100
>
>    This is svdinterface.
>
>    Writing to: left
>    Writing to: rght
>    Writing to: sing
>    Writing to: svd_diag
>    Reading: indx
>    Reading: indx
>    Reading: coll
>
>    FEWER THAN EXPECTED SINGULAR VALUES
>  ..................................................
>  Finishing target: /home/sverker/infomap_models/test22/left
>  ==================================================
>
>
>  ==================================================
>  Building target: /home/sverker/infomap_models/test22/wordvec.bin
>  Prerequisites: /home/sverker/infomap_models/test22/left
> /home/sverker/infomap_models/test22/dic
>  Tue Jan 23 01:18:31 PST 2007
>  ..................................................
>  encode_wordvec \
>          -m /home/sverker/infomap_models/test22
>  Opening File for "r":
>          "/home/sverker/infomap_models/test22/left"
>  Opening File for "w":
>          "/home/sverker/infomap_models/test22/wordvec.bin"
>  Reading the dictionary...
>  Opening File for "r":
>          "/home/sverker/infomap_models/test22/dic"
>  Initializing row indices...Done.
>  ..................................................
>  Finishing target: /home/sverker/infomap_models/test22/wordvec.bin
>  ==================================================
>
>
> ---------------------------------------------------------------------- 
> ---
> Using Tomcat but need to do more? Need to support web services,  
> security?
> Get stuff done quickly with pre-integrated technology to make your  
> job easier.
> Download IBM WebSphere Application Server v.1.0.1 based on Apache  
> Geronimo
> http://sel.as-us.falkag.net/sel? 
> cmd=lnk&kid=120709&bid=263057&dat=121642
> _______________________________________________
> infomap-nlp-devel mailing list
> inf...@li...
> https://lists.sourceforge.net/lists/listinfo/infomap-nlp-devel
>
> ---------------------------------------------------------------------- 
> ---
> Using Tomcat but need to do more? Need to support web services,  
> security?
> Get stuff done quickly with pre-integrated technology to make your  
> job easier.
> Download IBM WebSphere Application Server v.1.0.1 based on Apache  
> Geronimo
> http://sel.as-us.falkag.net/sel? 
> cmd=lnk&kid=120709&bid=263057&dat=121642
> _______________________________________________
> infomap-nlp-users mailing list
> inf...@li...
> https://lists.sourceforge.net/lists/listinfo/infomap-nlp-users
>

[infomap-nlp-users] Fwd: [infomap-nlp-devel] FEWER THAN EXPECTED SINGULAR VALUES

[Scott C. <ced...@gm...>]

---------- Forwarded message ----------
From: Marie Gustafsson <mag...@ps...>
Date: Feb 9, 2007 4:26 AM
Subject: [infomap-nlp-devel] FEWER THAN EXPECTED SINGULAR VALUES
To: inf...@li...,
inf...@li...



 Dear all,

 While infomap-build -s, during svd.interface I get this message:

   FEWER THAN EXPECTED SINGULAR VALUES

 Anyone who can help me solve this problem?

 Best regards,
 Marie Gustafsson



 ==================================================
 Building target: /home/sverker/infomap_models/test22/left
 Prerequisites: /home/sverker/infomap_models/test22/coll
/home/sverker/infomap_models/test22/indx
 Tue Jan 23 01:18:31 PST 2007
 ..................................................
 cd /home/sverker/infomap_models/test22 && rm -f svd_diag left \
                         rght sing
 cd /home/sverker/infomap_models/test22 && svdinterface \
         -singvals 100 \
         -iter 100

   This is svdinterface.

   Writing to: left
   Writing to: rght
   Writing to: sing
   Writing to: svd_diag
   Reading: indx
   Reading: indx
   Reading: coll

   FEWER THAN EXPECTED SINGULAR VALUES
 ..................................................
 Finishing target: /home/sverker/infomap_models/test22/left
 ==================================================


 ==================================================
 Building target: /home/sverker/infomap_models/test22/wordvec.bin
 Prerequisites: /home/sverker/infomap_models/test22/left
/home/sverker/infomap_models/test22/dic
 Tue Jan 23 01:18:31 PST 2007
 ..................................................
 encode_wordvec \
         -m /home/sverker/infomap_models/test22
 Opening File for "r":
         "/home/sverker/infomap_models/test22/left"
 Opening File for "w":
         "/home/sverker/infomap_models/test22/wordvec.bin"
 Reading the dictionary...
 Opening File for "r":
         "/home/sverker/infomap_models/test22/dic"
 Initializing row indices...Done.
 ..................................................
 Finishing target: /home/sverker/infomap_models/test22/wordvec.bin
 ==================================================


-------------------------------------------------------------------------
Using Tomcat but need to do more? Need to support web services, security?
Get stuff done quickly with pre-integrated technology to make your job easier.
Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo
http://sel.as-us.falkag.net/sel?cmd=lnk&kid=120709&bid=263057&dat=121642
_______________________________________________
infomap-nlp-devel mailing list
inf...@li...
https://lists.sourceforge.net/lists/listinfo/infomap-nlp-devel

[infomap-nlp-users] IGNORE PREVIOUS MAIL: Problems getting INFOMAP going

[Sverker <sve...@lu...>]

HI PLEASE IGNORA MY PREVIOUS MAIL I THINK I GOT IT WORKING! THANKS!!!!

Hi

I am having problem starting using infomap. In particular i get an "fsign"=
=20
error during exectuion of "coll". Do you know what the problem is?

I would really appreciate help getting this software running, because my=20
research progress is dependent on it!!!!!

The output from infomap-build is below:

Is this an installation problem? I am not confident that i did the=20
configure command correct, i did get the following 'no' following the=20
configure command (I pasted all output during installation below):

checking whether we are cross compiling... no
checking ndbm.h usability... no
checking ndbm.h presence... no
checking for ndbm.h... no
checking whether stat accepts an empty string... no

INFOMAP-BUILD COMMAND:

[sverker@sccn ~]$ infomap-build -s /home/sverker/test.txt test5
Sourcing param file "/home/sverker/install/share/infomap-nlp/default-params"
Sourcing extra param file "/tmp/infomap-build.xF4114"
Contents are:
Removing extra param file
WORKING_DATA_DIR =3D "/home/sverker/infomap_models/test5"
CORPUS_DIR =3D "/home/sverker"
CORPUS_FILE =3D "/home/sverker/test.txt"
FNAMES_FILE =3D ""
ROWS =3D "20000"
COLUMNS =3D "1000"
SINGVALS =3D "100"
SVD_ITER =3D "100"
PRE_CONTEXT_SIZE =3D "15"
POST_CONTEXT_SIZE =3D "15"
WRITE_MATLAB_FORMAT =3D "0"
VALID_CHARS_FILE =3D=
 "/home/sverker/install/share/infomap-nlp/valid_chars.en"
STOPLIST_FILE =3D "/home/sverker/install/share/infomap-nlp/stop.list"
COL_LABELS_FROM_FILE =3D "0"
COL_LABEL_FILE =3D ""
echo "Making datadir"
Making datadir
mkdir -p /home/sverker/infomap_models/test5

=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=
=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D
Building target: /home/sverker/infomap_models/test5/wordlist
Prerequisites: /home/sverker/test.txt
Fri Jan 19 11:55:12 PST 2007
..................................................
prepare_corpus \
-cdir "/home/sverker" \
         -mdir "/home/sverker/infomap_models/test5" \
         -cfile "/home/sverker/test.txt" \
         -fnfile "" \
         -chfile "/home/sverker/install/share/infomap-nlp/valid_chars.en" \
         -slfile "/home/sverker/install/share/infomap-nlp/stop.list" \
         -rptfile ""
Locale set to en_US.
Opening File for "r":
         "/home/sverker/install/share/infomap-nlp/valid_chars.en"
Opening File for "r":
         ""
my_fopen: No such file or directory
Opening File for "r":
         "/home/sverker/install/share/infomap-nlp/stop.list"
Opening File for "w":
         "/home/sverker/infomap_models/test5/wordlist"
Opening File for "r":
         "/home/sverker/test.txt"
Opening File for "w":
         "/home/sverker/infomap_models/test5/numDocs"
Typecount =3D 826
Preparing to sort ... Sorting ... Done.
Opening File for "w":
         "/home/sverker/infomap_models/test5/dic"
..................................................
Finishing target: /home/sverker/infomap_models/test5/wordlist
=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=
=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D


=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=
=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D
Building target: /home/sverker/infomap_models/test5/coll
Prerequisites: /home/sverker/infomap_models/test5/wordlist=20
/home/sverker/infomap_models/test5/dic=20
/home/sverker/infomap_models/test5/numDocs
Fri Jan 19 11:55:12 PST 2007
..................................................
count_wordvec \
-mdir /home/sverker/infomap_models/test5 \
-matlab 0 \
-precontext 15 \
-postcontext 15 \
-rows 20000 \
-columns 1000 \
-col_labels_from_file 0 \
-col_label_file ""
model data dir is "/home/sverker/infomap_models/test5".
count_wordvec.c: looking for 826 rows
which had better match 826
Reading the dictionary... Opening File for "r":
         "/home/sverker/infomap_models/test5/dic"
Opening File for "r":
         "/home/sverker/infomap_models/test5/numDocs"
Initializing row indices...Done.
Initializing column indices...Done.
Allocating matrix memory...done.
Initializing matrix...done.
model data dir is "/home/sverker/infomap_models/test5".
count_wordvec.c: about to call process_wordlist
Entering process_wordlist.
About to call initialize_wordlist.
Opening File for "r":
         "/home/sverker/infomap_models/test5/wordlist"
Returned from initialize_wordlist.
Writing the co-occurrence matrix.
Entering write_matrix_svd; rows =3D 826 and columns =3D 1000.
Opening File for "w":
         "/home/sverker/infomap_models/test5/coll"
Opening File for "w":
         "/home/sverker/infomap_models/test5/indx"
..................................................
Finishing target: /home/sverker/infomap_models/test5/coll
=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=
=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D


=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=
=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D
Building target: /home/sverker/infomap_models/test5/left
Prerequisites: /home/sverker/infomap_models/test5/coll=20
/home/sverker/infomap_models/test5/indx
Fri Jan 19 11:55:12 PST 2007
..................................................
cd /home/sverker/infomap_models/test5 && rm -f svd_diag left \
                         rght sing
cd /home/sverker/infomap_models/test5 && svdinterface \
         -singvals 100 \
         -iter 100

   This is svdinterface.

   Writing to: left
   Writing to: rght
   Writing to: sing
   Writing to: svd_diag
   Reading: indx
   Reading: indx
   Reading: coll


   ERROR:

   fsign

make: *** [/home/sverker/infomap_models/test5/left] Error 1
[sverker@sccn ~]$

CONFIGUREING / INSTALLATION:

[sverker@sccn ~/infomap-nlp-0.8.6]$ ./configure=
 --prefix=3D/home/sverker/install
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking for gcc... gcc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ANSI C... none needed
checking for style of include used by make... GNU
checking dependency style of gcc... gcc3
checking how to run the C preprocessor... gcc -E
checking for a BSD-compatible install... /usr/bin/install -c
checking whether make sets $(MAKE)... (cached) yes
checking for sqrt in -lm... yes
checking for dbm_open in -lgdbm... yes
checking for egrep... grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking fcntl.h usability... yes
checking fcntl.h presence... yes
checking for fcntl.h... yes
checking locale.h usability... yes
checking locale.h presence... yes
checking for locale.h... yes
checking for stdlib.h... (cached) yes
checking for string.h... (cached) yes
checking sys/file.h usability... yes
checking sys/file.h presence... yes
checking for sys/file.h... yes
checking sys/time.h usability... yes
checking sys/time.h presence... yes
checking for sys/time.h... yes
checking for unistd.h... (cached) yes
checking ndbm.h usability... no
checking ndbm.h presence... no
checking for ndbm.h... no
checking gdbm/ndbm.h usability... yes
checking gdbm/ndbm.h presence... yes
checking for gdbm/ndbm.h... yes
checking for an ANSI C-conforming const... yes
checking for off_t... yes
checking for size_t... yes
checking for stdlib.h... (cached) yes
checking for GNU libc compatible malloc... yes
checking whether lstat dereferences a symlink specified with a trailing=20
slash... yes
checking whether stat accepts an empty string... no
checking for getcwd... yes
checking for memset... yes
checking for setlocale... yes
checking for sqrt... yes
checking for strchr... yes
checking for strdup... yes
checking for strstr... yes
checking for dbm_open... yes
checking for dbm_close... yes
checking for dbm_fetch... yes
checking for dbm_store... yes
configure: creating ./config.status
./config.status: line 305: NLP config.status 0.8.6
configured by ./configure, generated by GNU Autoconf 2.59,
   with options "'--prefix=3D/home/sverker/install'"

Copyright (C) 2003 Free Software Foundation, Inc.
This config.status script is free software; the Free Software Foundation
gives unlimited permission to copy, distribute and modify it.: No such file=
=20
or directory
config.status: creating Makefile
config.status: creating preprocessing/Makefile
config.status: creating search/Makefile
config.status: creating svd/Makefile
config.status: creating svd/svdinterface/Makefile
config.status: creating lib/Makefile
config.status: creating admin/Makefile
config.status: creating admin/infomap-build
config.status: creating admin/infomap-install
config.status: creating admin/Makefile.data
config.status: creating admin/default-params
config.status: creating doc/Makefile
config.status: creating doc/man/Makefile
config.status: creating doc/man/man1/Makefile
config.status: creating doc/man/man5/Makefile
config.status: creating doc/html/Makefile
config.status: creating doc/html/tutorial/Makefile
config.status: creating util/Makefile
config.status: creating config.h
config.status: config.h is unchanged
config.status: executing depfiles commands
[sverker@sccn ~/infomap-nlp-0.8.6]$

MAKE COMMANDE:

[sverker@sccn ~/infomap-nlp-0.8.6]$ make
make  all-recursive
make[1]: Entering directory `/home/sverker/infomap-nlp-0.8.6'
Making all in .
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6'
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6'
Making all in admin
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/admin'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/admin'
Making all in lib
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/lib'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/lib'
Making all in search
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/search'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/search'
Making all in preprocessing
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/preprocessing'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/preprocessing'
Making all in svd
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/svd'
Making all in svdinterface
make[3]: Entering directory=
 `/home/sverker/infomap-nlp-0.8.6/svd/svdinterface'
make[3]: Nothing to be done for `all'.
make[3]: Leaving directory=
 `/home/sverker/infomap-nlp-0.8.6/svd/svdinterface'
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/svd'
make[3]: Nothing to be done for `all-am'.
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/svd'
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/svd'
Making all in doc
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc'
Making all in man
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man'
Making all in man1
make[4]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man1'
make[4]: Nothing to be done for `all'.
make[4]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man1'
Making all in man5
make[4]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man5'
make[4]: Nothing to be done for `all'.
make[4]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man5'
make[4]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man'
make[4]: Nothing to be done for `all-am'.
make[4]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man'
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man'
Making all in html
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/html'
Making all in .
make[4]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/html'
make[4]: Nothing to be done for `all-am'.
make[4]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/html'
Making all in tutorial
make[4]: Entering directory=
 `/home/sverker/infomap-nlp-0.8.6/doc/html/tutorial'
make[4]: Nothing to be done for `all'.
make[4]: Leaving directory=
 `/home/sverker/infomap-nlp-0.8.6/doc/html/tutorial'
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/html'
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc'
make[3]: Nothing to be done for `all-am'.
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc'
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc'
Making all in util
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/util'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/util'
make[1]: Leaving directory `/home/sverker/infomap-nlp-0.8.6'
[sverker@sccn ~/infomap-nlp-0.8.6]$ ~

MAKE INSTALL COMMANDE:

[sverker@sccn ~/infomap-nlp-0.8.6]$ make install
Making install in .
make[1]: Entering directory `/home/sverker/infomap-nlp-0.8.6'
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6'
make[2]: Nothing to be done for `install-exec-am'.
make[2]: Nothing to be done for `install-data-am'.
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6'
make[1]: Leaving directory `/home/sverker/infomap-nlp-0.8.6'
Making install in admin
make[1]: Entering directory `/home/sverker/infomap-nlp-0.8.6/admin'
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/admin'
/bin/sh ../mkinstalldirs /home/sverker/install/bin
  /usr/bin/install -c infomap-install=
 /home/sverker/install/bin/infomap-install
  /usr/bin/install -c infomap-build /home/sverker/install/bin/infomap-build
mv infomap-install infomap-install.old
sed -e "s,^prefix=3D,prefix=3D/home/sverker/install," \
            infomap-install.old >infomap-install
/usr/bin/install -c infomap-install=
 /home/sverker/install/bin/infomap-install
mv infomap-build infomap-build.old
sed -e "s,^prefix=3D,prefix=3D/home/sverker/install," \
     -e "s,^exec_prefix=3D,exec_prefix=3D/home/sverker/install," \
    infomap-build.old >infomap-build
/usr/bin/install -c infomap-build /home/sverker/install/bin/infomap-build
make  install-exec-hook
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/admin'
mv -f infomap-install.old infomap-install
mv -f infomap-build.old infomap-build
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/admin'
mv Makefile.data Makefile.data.old
sed -e "s,^prefix=3D,prefix=3D/home/sverker/install," \
    Makefile.data.old >Makefile.data
mkdir -p /home/sverker/install/share/infomap-nlp
/usr/bin/install -c Makefile.data=20
/home/sverker/install/share/infomap-nlp/Makefile.data
mv default-params default-params.old
sed -e "s,^prefix=3D,prefix=3D/home/sverker/install," \
    default-params.old >default-params
mkdir -p /home/sverker/install/share/infomap-nlp
/usr/bin/install -c default-params=20
/home/sverker/install/share/infomap-nlp/Makefile.data
/bin/sh ../mkinstalldirs /home/sverker/install/share/infomap-nlp
  /usr/bin/install -c -m 644 Makefile.data=20
/home/sverker/install/share/infomap-nlp/Makefile.data
  /usr/bin/install -c -m 644 Makefile.filenames=20
/home/sverker/install/share/infomap-nlp/Makefile.filenames
  /usr/bin/install -c -m 644 install.control=20
/home/sverker/install/share/infomap-nlp/install.control
  /usr/bin/install -c -m 644 default-params=20
/home/sverker/install/share/infomap-nlp/default-params
  /usr/bin/install -c -m 644 stop.list=20
/home/sverker/install/share/infomap-nlp/stop.list
  /usr/bin/install -c -m 644 valid_chars.en=20
/home/sverker/install/share/infomap-nlp/valid_chars.en
make  install-data-hook
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/admin'
mv -f Makefile.data.old Makefile.data
mv -f default-params.old default-params
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/admin'
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/admin'
make[1]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/admin'
Making install in lib
make[1]: Entering directory `/home/sverker/infomap-nlp-0.8.6/lib'
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/lib'
make[2]: Nothing to be done for `install-exec-am'.
make[2]: Nothing to be done for `install-data-am'.
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/lib'
make[1]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/lib'
Making install in search
make[1]: Entering directory `/home/sverker/infomap-nlp-0.8.6/search'
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/search'
/bin/sh ../mkinstalldirs /home/sverker/install/bin
   /usr/bin/install -c associate /home/sverker/install/bin/associate
   /usr/bin/install -c print_doc /home/sverker/install/bin/print_doc
make[2]: Nothing to be done for `install-data-am'.
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/search'
make[1]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/search'
Making install in preprocessing
make[1]: Entering directory `/home/sverker/infomap-nlp-0.8.6/preprocessing'
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/preprocessing'
/bin/sh ../mkinstalldirs /home/sverker/install/bin
   /usr/bin/install -c prepare_corpus=
 /home/sverker/install/bin/prepare_corpus
   /usr/bin/install -c count_wordvec /home/sverker/install/bin/count_wordvec
   /usr/bin/install -c encode_wordvec=
 /home/sverker/install/bin/encode_wordvec
   /usr/bin/install -c count_artvec /home/sverker/install/bin/count_artvec
   /usr/bin/install -c write_text_params=20
/home/sverker/install/bin/write_text_params
make[2]: Nothing to be done for `install-data-am'.
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/preprocessing'
make[1]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/preprocessing'
Making install in svd
make[1]: Entering directory `/home/sverker/infomap-nlp-0.8.6/svd'
Making install in svdinterface
make[2]: Entering directory=
 `/home/sverker/infomap-nlp-0.8.6/svd/svdinterface'
make[3]: Entering directory=
 `/home/sverker/infomap-nlp-0.8.6/svd/svdinterface'
/bin/sh ../../mkinstalldirs /home/sverker/install/bin
   /usr/bin/install -c svdinterface /home/sverker/install/bin/svdinterface
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory=
 `/home/sverker/infomap-nlp-0.8.6/svd/svdinterface'
make[2]: Leaving directory=
 `/home/sverker/infomap-nlp-0.8.6/svd/svdinterface'
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/svd'
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/svd'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/svd'
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/svd'
make[1]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/svd'
Making install in doc
make[1]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc'
Making install in man
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man'
Making install in man1
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man1'
make[4]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man1'
make[4]: Nothing to be done for `install-exec-am'.
/bin/sh ../../../mkinstalldirs /home/sverker/install/man/man1
  /usr/bin/install -c -m 644 ./associate.1=20
/home/sverker/install/man/man1/associate.1
  /usr/bin/install -c -m 644 ./count_artvec.1=20
/home/sverker/install/man/man1/count_artvec.1
  /usr/bin/install -c -m 644 ./count_wordvec.1=20
/home/sverker/install/man/man1/count_wordvec.1
  /usr/bin/install -c -m 644 ./encode_wordvec.1=20
/home/sverker/install/man/man1/encode_wordvec.1
  /usr/bin/install -c -m 644 ./prepare_corpus.1=20
/home/sverker/install/man/man1/prepare_corpus.1
  /usr/bin/install -c -m 644 ./print_doc.1=20
/home/sverker/install/man/man1/print_doc.1
  /usr/bin/install -c -m 644 ./svdinterface.1=20
/home/sverker/install/man/man1/svdinterface.1
  /usr/bin/install -c -m 644 ./write_text_params.1=20
/home/sverker/install/man/man1/write_text_params.1
  /usr/bin/install -c -m 644 ./infomap-build.1=20
/home/sverker/install/man/man1/infomap-build.1
  /usr/bin/install -c -m 644 ./infomap-install.1=20
/home/sverker/install/man/man1/infomap-install.1
make[4]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man1'
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man1'
Making install in man5
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man5'
make[4]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man5'
make[4]: Nothing to be done for `install-exec-am'.
/bin/sh ../../../mkinstalldirs /home/sverker/install/man/man5
  /usr/bin/install -c -m 644 ./infomap-install.control.5=20
/home/sverker/install/man/man5/infomap-install.control.5
make[4]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man5'
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man5'
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man'
make[4]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man'
make[4]: Nothing to be done for `install-exec-am'.
make[4]: Nothing to be done for `install-data-am'.
make[4]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man'
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man'
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man'
Making install in html
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/html'
Making install in .
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/html'
make[4]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/html'
make[4]: Nothing to be done for `install-exec-am'.
/bin/sh ../../mkinstalldirs /home/sverker/install/share/doc/infomap-nlp
  /usr/bin/install -c -m 644 SVD.gif=20
/home/sverker/install/share/doc/infomap-nlp/SVD.gif
  /usr/bin/install -c -m 644 algorithm.html=20
/home/sverker/install/share/doc/infomap-nlp/algorithm.html
  /usr/bin/install -c -m 644 contact.html=20
/home/sverker/install/share/doc/infomap-nlp/contact.html
  /usr/bin/install -c -m 644 drive-car.gif=20
/home/sverker/install/share/doc/infomap-nlp/drive-car.gif
  /usr/bin/install -c -m 644 implementation_guide.html=20
/home/sverker/install/share/doc/infomap-nlp/implementation_guide.html
  /usr/bin/install -c -m 644 index.html=20
/home/sverker/install/share/doc/infomap-nlp/index.html
  /usr/bin/install -c -m 644 input_formats.html=20
/home/sverker/install/share/doc/infomap-nlp/input_formats.html
  /usr/bin/install -c -m 644 troubleshooting.html=20
/home/sverker/install/share/doc/infomap-nlp/troubleshooting.html
  /usr/bin/install -c -m 644 user_manual.html=20
/home/sverker/install/share/doc/infomap-nlp/user_manual.html
make[4]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/html'
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/html'
Making install in tutorial
make[3]: Entering directory=
 `/home/sverker/infomap-nlp-0.8.6/doc/html/tutorial'
make[4]: Entering directory=
 `/home/sverker/infomap-nlp-0.8.6/doc/html/tutorial'
make[4]: Nothing to be done for `install-exec-am'.
/bin/sh ../../../mkinstalldirs=20
/home/sverker/install/share/doc/infomap-nlp/tutorial
  /usr/bin/install -c -m 644 background.html=20
/home/sverker/install/share/doc/infomap-nlp/tutorial/background.html
  /usr/bin/install -c -m 644 index.html=20
/home/sverker/install/share/doc/infomap-nlp/tutorial/index.html
  /usr/bin/install -c -m 644 multi-file.html=20
/home/sverker/install/share/doc/infomap-nlp/tutorial/multi-file.html
  /usr/bin/install -c -m 644 single-doc.html=20
/home/sverker/install/share/doc/infomap-nlp/tutorial/single-doc.html
  /usr/bin/install -c -m 644 single-file.html=20
/home/sverker/install/share/doc/infomap-nlp/tutorial/single-file.html
make[4]: Leaving directory=
 `/home/sverker/infomap-nlp-0.8.6/doc/html/tutorial'
make[3]: Leaving directory=
 `/home/sverker/infomap-nlp-0.8.6/doc/html/tutorial'
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/html'
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc'
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc'
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc'
make[1]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc'
Making install in util
make[1]: Entering directory `/home/sverker/infomap-nlp-0.8.6/util'
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/util'
/bin/sh ../mkinstalldirs /home/sverker/install/bin
   /usr/bin/install -c dump_word_vectors=20
/home/sverker/install/bin/dump_word_vectors
make[2]: Nothing to be done for `install-data-am'.
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/util'
make[1]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/util'
[sverker@sccn ~/infomap-nlp-0.8.6]$



Docent Sverker Sikstr=F6m, Kognitionsavdelningen, Kungshuset, Lundag=E5rd,=
=20
s-22222 Lund, ++46-46-2220923 (work Lund), ++46-70-3614333 (mobile+SMS),=20
040-692 84 07 (home) http://www.lucs.lu.se/People/Sverker.Sikstrom

[infomap-nlp-users] Problems getting INFOMAP going

[Sverker <sve...@lu...>]

Hi

I am having problem starting using infomap. In particular i get an "fsign"=
=20
error during exectuion of "coll". Do you know what the problem is?

I would really appreciate help getting this software running, because my=20
research progress is dependent on it!!!!!

The output from infomap-build is below:

Is this an installation problem? I am not confident that i did the=20
configure command correct, i did get the following 'no' following the=20
configure command (I pasted all output during installation below):

checking whether we are cross compiling... no
checking ndbm.h usability... no
checking ndbm.h presence... no
checking for ndbm.h... no
checking whether stat accepts an empty string... no

INFOMAP-BUILD COMMAND:

[sverker@sccn ~]$ infomap-build -s /home/sverker/test.txt test5
Sourcing param file "/home/sverker/install/share/infomap-nlp/default-params"
Sourcing extra param file "/tmp/infomap-build.xF4114"
Contents are:
Removing extra param file
WORKING_DATA_DIR =3D "/home/sverker/infomap_models/test5"
CORPUS_DIR =3D "/home/sverker"
CORPUS_FILE =3D "/home/sverker/test.txt"
FNAMES_FILE =3D ""
ROWS =3D "20000"
COLUMNS =3D "1000"
SINGVALS =3D "100"
SVD_ITER =3D "100"
PRE_CONTEXT_SIZE =3D "15"
POST_CONTEXT_SIZE =3D "15"
WRITE_MATLAB_FORMAT =3D "0"
VALID_CHARS_FILE =3D=
 "/home/sverker/install/share/infomap-nlp/valid_chars.en"
STOPLIST_FILE =3D "/home/sverker/install/share/infomap-nlp/stop.list"
COL_LABELS_FROM_FILE =3D "0"
COL_LABEL_FILE =3D ""
echo "Making datadir"
Making datadir
mkdir -p /home/sverker/infomap_models/test5

=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=
=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D
Building target: /home/sverker/infomap_models/test5/wordlist
Prerequisites: /home/sverker/test.txt
Fri Jan 19 11:55:12 PST 2007
..................................................
prepare_corpus \
-cdir "/home/sverker" \
         -mdir "/home/sverker/infomap_models/test5" \
         -cfile "/home/sverker/test.txt" \
         -fnfile "" \
         -chfile "/home/sverker/install/share/infomap-nlp/valid_chars.en" \
         -slfile "/home/sverker/install/share/infomap-nlp/stop.list" \
         -rptfile ""
Locale set to en_US.
Opening File for "r":
         "/home/sverker/install/share/infomap-nlp/valid_chars.en"
Opening File for "r":
         ""
my_fopen: No such file or directory
Opening File for "r":
         "/home/sverker/install/share/infomap-nlp/stop.list"
Opening File for "w":
         "/home/sverker/infomap_models/test5/wordlist"
Opening File for "r":
         "/home/sverker/test.txt"
Opening File for "w":
         "/home/sverker/infomap_models/test5/numDocs"
Typecount =3D 826
Preparing to sort ... Sorting ... Done.
Opening File for "w":
         "/home/sverker/infomap_models/test5/dic"
..................................................
Finishing target: /home/sverker/infomap_models/test5/wordlist
=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=
=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D


=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=
=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D
Building target: /home/sverker/infomap_models/test5/coll
Prerequisites: /home/sverker/infomap_models/test5/wordlist=20
/home/sverker/infomap_models/test5/dic=20
/home/sverker/infomap_models/test5/numDocs
Fri Jan 19 11:55:12 PST 2007
..................................................
count_wordvec \
-mdir /home/sverker/infomap_models/test5 \
-matlab 0 \
-precontext 15 \
-postcontext 15 \
-rows 20000 \
-columns 1000 \
-col_labels_from_file 0 \
-col_label_file ""
model data dir is "/home/sverker/infomap_models/test5".
count_wordvec.c: looking for 826 rows
which had better match 826
Reading the dictionary... Opening File for "r":
         "/home/sverker/infomap_models/test5/dic"
Opening File for "r":
         "/home/sverker/infomap_models/test5/numDocs"
Initializing row indices...Done.
Initializing column indices...Done.
Allocating matrix memory...done.
Initializing matrix...done.
model data dir is "/home/sverker/infomap_models/test5".
count_wordvec.c: about to call process_wordlist
Entering process_wordlist.
About to call initialize_wordlist.
Opening File for "r":
         "/home/sverker/infomap_models/test5/wordlist"
Returned from initialize_wordlist.
Writing the co-occurrence matrix.
Entering write_matrix_svd; rows =3D 826 and columns =3D 1000.
Opening File for "w":
         "/home/sverker/infomap_models/test5/coll"
Opening File for "w":
         "/home/sverker/infomap_models/test5/indx"
..................................................
Finishing target: /home/sverker/infomap_models/test5/coll
=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=
=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D


=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=
=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D=3D
Building target: /home/sverker/infomap_models/test5/left
Prerequisites: /home/sverker/infomap_models/test5/coll=20
/home/sverker/infomap_models/test5/indx
Fri Jan 19 11:55:12 PST 2007
..................................................
cd /home/sverker/infomap_models/test5 && rm -f svd_diag left \
                         rght sing
cd /home/sverker/infomap_models/test5 && svdinterface \
         -singvals 100 \
         -iter 100

   This is svdinterface.

   Writing to: left
   Writing to: rght
   Writing to: sing
   Writing to: svd_diag
   Reading: indx
   Reading: indx
   Reading: coll


   ERROR:

   fsign

make: *** [/home/sverker/infomap_models/test5/left] Error 1
[sverker@sccn ~]$

CONFIGUREING / INSTALLATION:

[sverker@sccn ~/infomap-nlp-0.8.6]$ ./configure=
 --prefix=3D/home/sverker/install
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking for gcc... gcc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ANSI C... none needed
checking for style of include used by make... GNU
checking dependency style of gcc... gcc3
checking how to run the C preprocessor... gcc -E
checking for a BSD-compatible install... /usr/bin/install -c
checking whether make sets $(MAKE)... (cached) yes
checking for sqrt in -lm... yes
checking for dbm_open in -lgdbm... yes
checking for egrep... grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking fcntl.h usability... yes
checking fcntl.h presence... yes
checking for fcntl.h... yes
checking locale.h usability... yes
checking locale.h presence... yes
checking for locale.h... yes
checking for stdlib.h... (cached) yes
checking for string.h... (cached) yes
checking sys/file.h usability... yes
checking sys/file.h presence... yes
checking for sys/file.h... yes
checking sys/time.h usability... yes
checking sys/time.h presence... yes
checking for sys/time.h... yes
checking for unistd.h... (cached) yes
checking ndbm.h usability... no
checking ndbm.h presence... no
checking for ndbm.h... no
checking gdbm/ndbm.h usability... yes
checking gdbm/ndbm.h presence... yes
checking for gdbm/ndbm.h... yes
checking for an ANSI C-conforming const... yes
checking for off_t... yes
checking for size_t... yes
checking for stdlib.h... (cached) yes
checking for GNU libc compatible malloc... yes
checking whether lstat dereferences a symlink specified with a trailing=20
slash... yes
checking whether stat accepts an empty string... no
checking for getcwd... yes
checking for memset... yes
checking for setlocale... yes
checking for sqrt... yes
checking for strchr... yes
checking for strdup... yes
checking for strstr... yes
checking for dbm_open... yes
checking for dbm_close... yes
checking for dbm_fetch... yes
checking for dbm_store... yes
configure: creating ./config.status
./config.status: line 305: NLP config.status 0.8.6
configured by ./configure, generated by GNU Autoconf 2.59,
   with options "'--prefix=3D/home/sverker/install'"

Copyright (C) 2003 Free Software Foundation, Inc.
This config.status script is free software; the Free Software Foundation
gives unlimited permission to copy, distribute and modify it.: No such file=
=20
or directory
config.status: creating Makefile
config.status: creating preprocessing/Makefile
config.status: creating search/Makefile
config.status: creating svd/Makefile
config.status: creating svd/svdinterface/Makefile
config.status: creating lib/Makefile
config.status: creating admin/Makefile
config.status: creating admin/infomap-build
config.status: creating admin/infomap-install
config.status: creating admin/Makefile.data
config.status: creating admin/default-params
config.status: creating doc/Makefile
config.status: creating doc/man/Makefile
config.status: creating doc/man/man1/Makefile
config.status: creating doc/man/man5/Makefile
config.status: creating doc/html/Makefile
config.status: creating doc/html/tutorial/Makefile
config.status: creating util/Makefile
config.status: creating config.h
config.status: config.h is unchanged
config.status: executing depfiles commands
[sverker@sccn ~/infomap-nlp-0.8.6]$

MAKE COMMANDE:

[sverker@sccn ~/infomap-nlp-0.8.6]$ make
make  all-recursive
make[1]: Entering directory `/home/sverker/infomap-nlp-0.8.6'
Making all in .
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6'
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6'
Making all in admin
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/admin'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/admin'
Making all in lib
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/lib'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/lib'
Making all in search
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/search'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/search'
Making all in preprocessing
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/preprocessing'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/preprocessing'
Making all in svd
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/svd'
Making all in svdinterface
make[3]: Entering directory=
 `/home/sverker/infomap-nlp-0.8.6/svd/svdinterface'
make[3]: Nothing to be done for `all'.
make[3]: Leaving directory=
 `/home/sverker/infomap-nlp-0.8.6/svd/svdinterface'
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/svd'
make[3]: Nothing to be done for `all-am'.
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/svd'
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/svd'
Making all in doc
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc'
Making all in man
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man'
Making all in man1
make[4]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man1'
make[4]: Nothing to be done for `all'.
make[4]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man1'
Making all in man5
make[4]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man5'
make[4]: Nothing to be done for `all'.
make[4]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man5'
make[4]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man'
make[4]: Nothing to be done for `all-am'.
make[4]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man'
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man'
Making all in html
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/html'
Making all in .
make[4]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/html'
make[4]: Nothing to be done for `all-am'.
make[4]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/html'
Making all in tutorial
make[4]: Entering directory=
 `/home/sverker/infomap-nlp-0.8.6/doc/html/tutorial'
make[4]: Nothing to be done for `all'.
make[4]: Leaving directory=
 `/home/sverker/infomap-nlp-0.8.6/doc/html/tutorial'
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/html'
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc'
make[3]: Nothing to be done for `all-am'.
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc'
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc'
Making all in util
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/util'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/util'
make[1]: Leaving directory `/home/sverker/infomap-nlp-0.8.6'
[sverker@sccn ~/infomap-nlp-0.8.6]$ ~

MAKE INSTALL COMMANDE:

[sverker@sccn ~/infomap-nlp-0.8.6]$ make install
Making install in .
make[1]: Entering directory `/home/sverker/infomap-nlp-0.8.6'
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6'
make[2]: Nothing to be done for `install-exec-am'.
make[2]: Nothing to be done for `install-data-am'.
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6'
make[1]: Leaving directory `/home/sverker/infomap-nlp-0.8.6'
Making install in admin
make[1]: Entering directory `/home/sverker/infomap-nlp-0.8.6/admin'
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/admin'
/bin/sh ../mkinstalldirs /home/sverker/install/bin
  /usr/bin/install -c infomap-install=
 /home/sverker/install/bin/infomap-install
  /usr/bin/install -c infomap-build /home/sverker/install/bin/infomap-build
mv infomap-install infomap-install.old
sed -e "s,^prefix=3D,prefix=3D/home/sverker/install," \
            infomap-install.old >infomap-install
/usr/bin/install -c infomap-install=
 /home/sverker/install/bin/infomap-install
mv infomap-build infomap-build.old
sed -e "s,^prefix=3D,prefix=3D/home/sverker/install," \
     -e "s,^exec_prefix=3D,exec_prefix=3D/home/sverker/install," \
    infomap-build.old >infomap-build
/usr/bin/install -c infomap-build /home/sverker/install/bin/infomap-build
make  install-exec-hook
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/admin'
mv -f infomap-install.old infomap-install
mv -f infomap-build.old infomap-build
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/admin'
mv Makefile.data Makefile.data.old
sed -e "s,^prefix=3D,prefix=3D/home/sverker/install," \
    Makefile.data.old >Makefile.data
mkdir -p /home/sverker/install/share/infomap-nlp
/usr/bin/install -c Makefile.data=20
/home/sverker/install/share/infomap-nlp/Makefile.data
mv default-params default-params.old
sed -e "s,^prefix=3D,prefix=3D/home/sverker/install," \
    default-params.old >default-params
mkdir -p /home/sverker/install/share/infomap-nlp
/usr/bin/install -c default-params=20
/home/sverker/install/share/infomap-nlp/Makefile.data
/bin/sh ../mkinstalldirs /home/sverker/install/share/infomap-nlp
  /usr/bin/install -c -m 644 Makefile.data=20
/home/sverker/install/share/infomap-nlp/Makefile.data
  /usr/bin/install -c -m 644 Makefile.filenames=20
/home/sverker/install/share/infomap-nlp/Makefile.filenames
  /usr/bin/install -c -m 644 install.control=20
/home/sverker/install/share/infomap-nlp/install.control
  /usr/bin/install -c -m 644 default-params=20
/home/sverker/install/share/infomap-nlp/default-params
  /usr/bin/install -c -m 644 stop.list=20
/home/sverker/install/share/infomap-nlp/stop.list
  /usr/bin/install -c -m 644 valid_chars.en=20
/home/sverker/install/share/infomap-nlp/valid_chars.en
make  install-data-hook
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/admin'
mv -f Makefile.data.old Makefile.data
mv -f default-params.old default-params
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/admin'
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/admin'
make[1]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/admin'
Making install in lib
make[1]: Entering directory `/home/sverker/infomap-nlp-0.8.6/lib'
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/lib'
make[2]: Nothing to be done for `install-exec-am'.
make[2]: Nothing to be done for `install-data-am'.
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/lib'
make[1]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/lib'
Making install in search
make[1]: Entering directory `/home/sverker/infomap-nlp-0.8.6/search'
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/search'
/bin/sh ../mkinstalldirs /home/sverker/install/bin
   /usr/bin/install -c associate /home/sverker/install/bin/associate
   /usr/bin/install -c print_doc /home/sverker/install/bin/print_doc
make[2]: Nothing to be done for `install-data-am'.
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/search'
make[1]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/search'
Making install in preprocessing
make[1]: Entering directory `/home/sverker/infomap-nlp-0.8.6/preprocessing'
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/preprocessing'
/bin/sh ../mkinstalldirs /home/sverker/install/bin
   /usr/bin/install -c prepare_corpus=
 /home/sverker/install/bin/prepare_corpus
   /usr/bin/install -c count_wordvec /home/sverker/install/bin/count_wordvec
   /usr/bin/install -c encode_wordvec=
 /home/sverker/install/bin/encode_wordvec
   /usr/bin/install -c count_artvec /home/sverker/install/bin/count_artvec
   /usr/bin/install -c write_text_params=20
/home/sverker/install/bin/write_text_params
make[2]: Nothing to be done for `install-data-am'.
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/preprocessing'
make[1]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/preprocessing'
Making install in svd
make[1]: Entering directory `/home/sverker/infomap-nlp-0.8.6/svd'
Making install in svdinterface
make[2]: Entering directory=
 `/home/sverker/infomap-nlp-0.8.6/svd/svdinterface'
make[3]: Entering directory=
 `/home/sverker/infomap-nlp-0.8.6/svd/svdinterface'
/bin/sh ../../mkinstalldirs /home/sverker/install/bin
   /usr/bin/install -c svdinterface /home/sverker/install/bin/svdinterface
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory=
 `/home/sverker/infomap-nlp-0.8.6/svd/svdinterface'
make[2]: Leaving directory=
 `/home/sverker/infomap-nlp-0.8.6/svd/svdinterface'
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/svd'
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/svd'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/svd'
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/svd'
make[1]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/svd'
Making install in doc
make[1]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc'
Making install in man
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man'
Making install in man1
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man1'
make[4]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man1'
make[4]: Nothing to be done for `install-exec-am'.
/bin/sh ../../../mkinstalldirs /home/sverker/install/man/man1
  /usr/bin/install -c -m 644 ./associate.1=20
/home/sverker/install/man/man1/associate.1
  /usr/bin/install -c -m 644 ./count_artvec.1=20
/home/sverker/install/man/man1/count_artvec.1
  /usr/bin/install -c -m 644 ./count_wordvec.1=20
/home/sverker/install/man/man1/count_wordvec.1
  /usr/bin/install -c -m 644 ./encode_wordvec.1=20
/home/sverker/install/man/man1/encode_wordvec.1
  /usr/bin/install -c -m 644 ./prepare_corpus.1=20
/home/sverker/install/man/man1/prepare_corpus.1
  /usr/bin/install -c -m 644 ./print_doc.1=20
/home/sverker/install/man/man1/print_doc.1
  /usr/bin/install -c -m 644 ./svdinterface.1=20
/home/sverker/install/man/man1/svdinterface.1
  /usr/bin/install -c -m 644 ./write_text_params.1=20
/home/sverker/install/man/man1/write_text_params.1
  /usr/bin/install -c -m 644 ./infomap-build.1=20
/home/sverker/install/man/man1/infomap-build.1
  /usr/bin/install -c -m 644 ./infomap-install.1=20
/home/sverker/install/man/man1/infomap-install.1
make[4]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man1'
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man1'
Making install in man5
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man5'
make[4]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man5'
make[4]: Nothing to be done for `install-exec-am'.
/bin/sh ../../../mkinstalldirs /home/sverker/install/man/man5
  /usr/bin/install -c -m 644 ./infomap-install.control.5=20
/home/sverker/install/man/man5/infomap-install.control.5
make[4]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man5'
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man/man5'
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man'
make[4]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/man'
make[4]: Nothing to be done for `install-exec-am'.
make[4]: Nothing to be done for `install-data-am'.
make[4]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man'
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man'
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/man'
Making install in html
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/html'
Making install in .
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/html'
make[4]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc/html'
make[4]: Nothing to be done for `install-exec-am'.
/bin/sh ../../mkinstalldirs /home/sverker/install/share/doc/infomap-nlp
  /usr/bin/install -c -m 644 SVD.gif=20
/home/sverker/install/share/doc/infomap-nlp/SVD.gif
  /usr/bin/install -c -m 644 algorithm.html=20
/home/sverker/install/share/doc/infomap-nlp/algorithm.html
  /usr/bin/install -c -m 644 contact.html=20
/home/sverker/install/share/doc/infomap-nlp/contact.html
  /usr/bin/install -c -m 644 drive-car.gif=20
/home/sverker/install/share/doc/infomap-nlp/drive-car.gif
  /usr/bin/install -c -m 644 implementation_guide.html=20
/home/sverker/install/share/doc/infomap-nlp/implementation_guide.html
  /usr/bin/install -c -m 644 index.html=20
/home/sverker/install/share/doc/infomap-nlp/index.html
  /usr/bin/install -c -m 644 input_formats.html=20
/home/sverker/install/share/doc/infomap-nlp/input_formats.html
  /usr/bin/install -c -m 644 troubleshooting.html=20
/home/sverker/install/share/doc/infomap-nlp/troubleshooting.html
  /usr/bin/install -c -m 644 user_manual.html=20
/home/sverker/install/share/doc/infomap-nlp/user_manual.html
make[4]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/html'
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/html'
Making install in tutorial
make[3]: Entering directory=
 `/home/sverker/infomap-nlp-0.8.6/doc/html/tutorial'
make[4]: Entering directory=
 `/home/sverker/infomap-nlp-0.8.6/doc/html/tutorial'
make[4]: Nothing to be done for `install-exec-am'.
/bin/sh ../../../mkinstalldirs=20
/home/sverker/install/share/doc/infomap-nlp/tutorial
  /usr/bin/install -c -m 644 background.html=20
/home/sverker/install/share/doc/infomap-nlp/tutorial/background.html
  /usr/bin/install -c -m 644 index.html=20
/home/sverker/install/share/doc/infomap-nlp/tutorial/index.html
  /usr/bin/install -c -m 644 multi-file.html=20
/home/sverker/install/share/doc/infomap-nlp/tutorial/multi-file.html
  /usr/bin/install -c -m 644 single-doc.html=20
/home/sverker/install/share/doc/infomap-nlp/tutorial/single-doc.html
  /usr/bin/install -c -m 644 single-file.html=20
/home/sverker/install/share/doc/infomap-nlp/tutorial/single-file.html
make[4]: Leaving directory=
 `/home/sverker/infomap-nlp-0.8.6/doc/html/tutorial'
make[3]: Leaving directory=
 `/home/sverker/infomap-nlp-0.8.6/doc/html/tutorial'
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc/html'
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc'
make[3]: Entering directory `/home/sverker/infomap-nlp-0.8.6/doc'
make[3]: Nothing to be done for `install-exec-am'.
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc'
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc'
make[1]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/doc'
Making install in util
make[1]: Entering directory `/home/sverker/infomap-nlp-0.8.6/util'
make[2]: Entering directory `/home/sverker/infomap-nlp-0.8.6/util'
/bin/sh ../mkinstalldirs /home/sverker/install/bin
   /usr/bin/install -c dump_word_vectors=20
/home/sverker/install/bin/dump_word_vectors
make[2]: Nothing to be done for `install-data-am'.
make[2]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/util'
make[1]: Leaving directory `/home/sverker/infomap-nlp-0.8.6/util'
[sverker@sccn ~/infomap-nlp-0.8.6]$



Docent Sverker Sikstr=F6m, Kognitionsavdelningen, Kungshuset, Lundag=E5rd,=
=20
s-22222 Lund, ++46-46-2220923 (work Lund), ++46-70-3614333 (mobile+SMS),=20
040-692 84 07 (home) http://www.lucs.lu.se/People/Sverker.Sikstrom

Re: [infomap-nlp-users] infomap-build causes segmentation fault

[Scott C. <ced...@gm...>]

Hi Armin,

    Are you using a 64-bit machine?  I think I may have seen this error before.

    Also, are you familiar with gdb?


                 Scott

On 1/16/07, Armin Wegner <arm...@un...> wrote:
> Hello,
>
> infomap-build -s /home/awegner/Corpora/kjbible.txt kjbible
>
> causes a segmentation fault. The output is as follows:
>
> Sourcing param file "/home/awegner/share/infomap-nlp/default-params"
> Sourcing extra param file "/tmp/infomap-build.V22807"
> Contents are:
> Removing extra param file
> WORKING_DATA_DIR = "/home/awegner/Infomap/kjbible"
> CORPUS_DIR = "/home/awegner/Corpora"
> CORPUS_FILE = "/home/awegner/Corpora/kjbible.txt"
> FNAMES_FILE = ""
> ROWS = "20000"
> COLUMNS = "1000"
> SINGVALS = "100"
> SVD_ITER = "100"
> PRE_CONTEXT_SIZE = "15"
> POST_CONTEXT_SIZE = "15"
> WRITE_MATLAB_FORMAT = "0"
> VALID_CHARS_FILE = "/home/awegner/share/infomap-nlp/valid_chars.en"
> STOPLIST_FILE = "/home/awegner/share/infomap-nlp/stop.list"
> COL_LABELS_FROM_FILE = "0"
> COL_LABEL_FILE = ""
> echo "Making datadir"
> Making datadir
> mkdir -p /home/awegner/Infomap/kjbible
>
> ==================================================
> Building target: /home/awegner/Infomap/kjbible/wordlist
> Prerequisites: /home/awegner/Corpora/kjbible.txt
> Tue Jan 16 10:16:23 CET 2007
> ..................................................
> prepare_corpus \
> -cdir "/home/awegner/Corpora" \
>         -mdir "/home/awegner/Infomap/kjbible" \
>         -cfile "/home/awegner/Corpora/kjbible.txt" \
>         -fnfile "" \
>         -chfile "/home/awegner/share/infomap-nlp/valid_chars.en" \
>         -slfile "/home/awegner/share/infomap-nlp/stop.list" \
>         -rptfile ""
> Locale set to en_US.
> Opening File for "r":
>         "/home/awegner/share/infomap-nlp/valid_chars.en"
> Opening File for "r":
>         ""
> my_fopen: No such file or directory
> Opening File for "r":
>         "/home/awegner/share/infomap-nlp/stop.list"
> Opening File for "w":
>         "/home/awegner/Infomap/kjbible/wordlist"
> Opening File for "r":
>         "/home/awegner/Corpora/kjbible.txt"
> Opening File for "w":
>         "/home/awegner/Infomap/kjbible/numDocs"
> Typecount = 12805
> Preparing to sort ... Sorting ... Done.
> Opening File for "w":
>         "/home/awegner/Infomap/kjbible/dic"
> ..................................................
> Finishing target: /home/awegner/Infomap/kjbible/wordlist
> ==================================================
>
>
> ==================================================
> Building target: /home/awegner/Infomap/kjbible/coll
> Prerequisites: /home/awegner/Infomap/kjbible/wordlist /home/awegner/Infomap/kjbible/dic /home/awegner/Infomap/kjbible/numDocs
> Tue Jan 16 10:16:24 CET 2007
> ..................................................
> count_wordvec \
> -mdir /home/awegner/Infomap/kjbible \
> -matlab 0 \
> -precontext 15 \
> -postcontext 15 \
> -rows 20000 \
> -columns 1000 \
> -col_labels_from_file 0 \
> -col_label_file ""
> model data dir is "/home/awegner/Infomap/kjbible".
> Reading the dictionary... Opening File for "r":
>         "/home/awegner/Infomap/kjbible/dic"
> Opening File for "r":
>         "/home/awegner/Infomap/kjbible/numDocs"
> Initializing row indices...Done.
> Initializing column indices...Done.
> Allocating matrix memory...done.
> Initializing matrix...done.
> model data dir is "/home/awegner/Infomap/kjbible".
> count_wordvec.c: about to call process_wordlist
> Entering process_wordlist.
> About to call initialize_wordlist.
> Opening File for "r":
>         "/home/awegner/Infomap/kjbible/wordlist"
> Returned from initialize_wordlist.
> Writing the co-occurrence matrix.
> Opening File for "w":
>         "/home/awegner/Infomap/kjbible/coll"
> Opening File for "w":
>         "/home/awegner/Infomap/kjbible/indx"
> count_wordvec.c: looking for 12805 rows
> which had better match 12805
> Entering write_matrix_svd; rows = 12805 and columns = 1000.
> ..................................................
> Finishing target: /home/awegner/Infomap/kjbible/coll
> ==================================================
>
>
> ==================================================
> Building target: /home/awegner/Infomap/kjbible/left
> Prerequisites: /home/awegner/Infomap/kjbible/coll /home/awegner/Infomap/kjbible/indx
> Tue Jan 16 10:16:26 CET 2007
> ..................................................
> cd /home/awegner/Infomap/kjbible && rm -f svd_diag left \
>                         rght sing
> cd /home/awegner/Infomap/kjbible && svdinterface \
>         -singvals 100 \
>         -iter 100
>
>   This is svdinterface.
>
>   Writing to: left
>   Writing to: rght
>   Writing to: sing
>   Writing to: svd_diag
>   Reading: indx
>   Reading: indx
>   Reading: coll
> /bin/sh: line 1: 22852 Segmentation fault      svdinterface -singvals 100 -iter 100
> make: *** [/home/awegner/Infomap/kjbible/left] Error 139
>
> Can you help me, please?
>
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[infomap-nlp-users] infomap-build causes segmentation fault

[Armin W. <arm...@un...>]

Hello,

infomap-build -s /home/awegner/Corpora/kjbible.txt kjbible

causes a segmentation fault. The output is as follows:

Sourcing param file "/home/awegner/share/infomap-nlp/default-params"
Sourcing extra param file "/tmp/infomap-build.V22807"
Contents are:
Removing extra param file
WORKING_DATA_DIR = "/home/awegner/Infomap/kjbible"
CORPUS_DIR = "/home/awegner/Corpora"
CORPUS_FILE = "/home/awegner/Corpora/kjbible.txt"
FNAMES_FILE = ""
ROWS = "20000"
COLUMNS = "1000"
SINGVALS = "100"
SVD_ITER = "100"
PRE_CONTEXT_SIZE = "15"
POST_CONTEXT_SIZE = "15"
WRITE_MATLAB_FORMAT = "0"
VALID_CHARS_FILE = "/home/awegner/share/infomap-nlp/valid_chars.en"
STOPLIST_FILE = "/home/awegner/share/infomap-nlp/stop.list"
COL_LABELS_FROM_FILE = "0"
COL_LABEL_FILE = ""
echo "Making datadir"
Making datadir
mkdir -p /home/awegner/Infomap/kjbible

==================================================
Building target: /home/awegner/Infomap/kjbible/wordlist
Prerequisites: /home/awegner/Corpora/kjbible.txt
Tue Jan 16 10:16:23 CET 2007
..................................................
prepare_corpus \
-cdir "/home/awegner/Corpora" \
	-mdir "/home/awegner/Infomap/kjbible" \
	-cfile "/home/awegner/Corpora/kjbible.txt" \
	-fnfile "" \
	-chfile "/home/awegner/share/infomap-nlp/valid_chars.en" \
	-slfile "/home/awegner/share/infomap-nlp/stop.list" \
	-rptfile "" 
Locale set to en_US.
Opening File for "r":
	"/home/awegner/share/infomap-nlp/valid_chars.en"
Opening File for "r":
	""
my_fopen: No such file or directory
Opening File for "r":
	"/home/awegner/share/infomap-nlp/stop.list"
Opening File for "w":
	"/home/awegner/Infomap/kjbible/wordlist"
Opening File for "r":
	"/home/awegner/Corpora/kjbible.txt"
Opening File for "w":
	"/home/awegner/Infomap/kjbible/numDocs"
Typecount = 12805
Preparing to sort ... Sorting ... Done.
Opening File for "w":
	"/home/awegner/Infomap/kjbible/dic"
..................................................
Finishing target: /home/awegner/Infomap/kjbible/wordlist
==================================================


==================================================
Building target: /home/awegner/Infomap/kjbible/coll
Prerequisites: /home/awegner/Infomap/kjbible/wordlist /home/awegner/Infomap/kjbible/dic /home/awegner/Infomap/kjbible/numDocs
Tue Jan 16 10:16:24 CET 2007
..................................................
count_wordvec \
-mdir /home/awegner/Infomap/kjbible \
-matlab 0 \
-precontext 15 \
-postcontext 15 \
-rows 20000 \
-columns 1000 \
-col_labels_from_file 0 \
-col_label_file ""
model data dir is "/home/awegner/Infomap/kjbible".
Reading the dictionary... Opening File for "r":
	"/home/awegner/Infomap/kjbible/dic"
Opening File for "r":
	"/home/awegner/Infomap/kjbible/numDocs"
Initializing row indices...Done.
Initializing column indices...Done.
Allocating matrix memory...done.
Initializing matrix...done.
model data dir is "/home/awegner/Infomap/kjbible".
count_wordvec.c: about to call process_wordlist
Entering process_wordlist.
About to call initialize_wordlist.
Opening File for "r":
	"/home/awegner/Infomap/kjbible/wordlist"
Returned from initialize_wordlist.
Writing the co-occurrence matrix.
Opening File for "w":
	"/home/awegner/Infomap/kjbible/coll"
Opening File for "w":
	"/home/awegner/Infomap/kjbible/indx"
count_wordvec.c: looking for 12805 rows
which had better match 12805
Entering write_matrix_svd; rows = 12805 and columns = 1000.
..................................................
Finishing target: /home/awegner/Infomap/kjbible/coll
==================================================


==================================================
Building target: /home/awegner/Infomap/kjbible/left
Prerequisites: /home/awegner/Infomap/kjbible/coll /home/awegner/Infomap/kjbible/indx
Tue Jan 16 10:16:26 CET 2007
..................................................
cd /home/awegner/Infomap/kjbible && rm -f svd_diag left \
			rght sing
cd /home/awegner/Infomap/kjbible && svdinterface \
        -singvals 100 \
        -iter 100

  This is svdinterface.

  Writing to: left
  Writing to: rght
  Writing to: sing
  Writing to: svd_diag
  Reading: indx
  Reading: indx
  Reading: coll
/bin/sh: line 1: 22852 Segmentation fault      svdinterface -singvals 100 -iter 100
make: *** [/home/awegner/Infomap/kjbible/left] Error 139

Can you help me, please?

Re: [infomap-nlp-users] help modifying associate.h and compiling associate.c

[Scott C. <ced...@gm...>]

Rather than running gcc on associate.c directly, try re-running
./configure and make from the top-level directory of the Infomap source
distribution.

                                                        Scott

On 1/12/07, Catherine Canevet <cca...@in...> wrote:
> Hi,
>
> Happy new year everyone. I'm a PhD student working on biomedial
> literature mining at the University of Edinburgh. I'd like to run
> Infomap and retreive about 500 documents. I tried "associate -d -n 500
> -t -c model/ query" and I got the following message:
> *********************************************
> Number of neighbors can be at most 200; printing 200.
> (Edit associate.h and recompile to change.)
> *********************************************
>
> I then modified associate.h accordingly and tried to compile gcc
> associate.c, I got:
> *********************************************
> In file included from associate.h:37,
> from associate.c:34:
> list.h:45:17: error: env.h: No such file or directory
> In file included from associate.h:39,
> from associate.c:34:
> search_types.h:40: error: expected specifier-qualifier-list before
> 'MATRIX_TYPE'
> In file included from query.h:46,
> from associate.h:40,
> from associate.c:34:
> files.h:49: error: expected specifier-qualifier-list before 'FILE'
> In file included from associate.h:40,
> from associate.c:34:
> query.h:54: error: expected declaration specifiers or '...' before
> 'MATRIX_TYPE'
> query.h:55: error: expected declaration specifiers or '...' before
> 'MATRIX_TYPE'
> In file included from associate.c:34:
> associate.h:58: error: expected ')' before '*' token
> associate.c:37:23: error: filenames.h: No such file or directory
> associate.c:38:26: error: model_params.h: No such file or directory
> associate.c:58: error: expected ')' before 'query_vector'
> associate.c:61: error: expected '=', ',', ';', 'asm' or '__attribute__'
> before 'model_params'
> associate.c: In function 'main':
> associate.c:64: error: 'DBM' undeclared (first use in this function)
> associate.c:64: error: (Each undeclared identifier is reported only once
> associate.c:64: error: for each function it appears in.)
> associate.c:64: error: 'nu2na' undeclared (first use in this function)
> associate.c:66: error: 'MATRIX_TYPE' undeclared (first use in this function)
> associate.c:66: error: 'queryvector' undeclared (first use in this function)
> associate.c:72: error: 'datum' undeclared (first use in this function)
> associate.c:72: error: expected ';' before 'key'
> associate.c:73: error: 'BUFSIZ' undeclared (first use in this function)
> associate.c:96: error: 'FILE' undeclared (first use in this function)
> associate.c:96: error: 'vectorfile' undeclared (first use in this function)
> associate.c:119: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:119: error: 'stderr' undeclared (first use in this function)
> associate.c:134: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:142: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:149: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:157: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:166: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:180: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:194: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:217: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:230: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:238: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:247: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:263: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:278: warning: incompatible implicit declaration of built-in
> function 'sprintf'
> associate.c:290: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:294: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:301: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:304: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:315: warning: incompatible implicit declaration of built-in
> function 'sprintf'
> associate.c:315: error: 'MODEL_PARAMS_BIN_FILE' undeclared (first use in
> this function)
> associate.c:316: error: 'model_params' undeclared (first use in this
> function)
> associate.c:317: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:323: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:330: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:334: error: 'MANY_FILES' undeclared (first use in this function)
> associate.c:335: error: 'NUMBER2NAME_FILE' undeclared (first use in this
> function)
> associate.c:336: error: 'O_RDONLY' undeclared (first use in this function)
> associate.c:344: error: too many arguments to function 'build_query_vector'
> associate.c:345: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:352: error: 'FILES' has no member named 'wordvecbin'
> associate.c:355: error: 'FILES' has no member named 'artvecbin'
> associate.c:362: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:368: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:380: error: 'key' undeclared (first use in this function)
> associate.c:380: error: 'NEIGHBOR_ITEM' has no member named 'offset'
> associate.c:381: error: 'NEIGHBOR_ITEM' has no member named 'offset'
> associate.c:382: error: 'content' undeclared (first use in this function)
> associate.c:382: error: 'FILES' has no member named 'o2w'
> associate.c:383: error: 'NEIGHBOR_ITEM' has no member named 'string'
> associate.c:385: error: 'NEIGHBOR_ITEM' has no member named 'string'
> associate.c:389: error: 'NEIGHBOR_ITEM' has no member named 'offset'
> associate.c:390: error: 'NEIGHBOR_ITEM' has no member named 'offset'
> associate.c:391: error: 'FILES' has no member named 'o2a'
> associate.c:394: error: 'ONE_FILE' undeclared (first use in this function)
> associate.c:395: error: 'NEIGHBOR_ITEM' has no member named 'string'
> associate.c:400: error: 'content2' undeclared (first use in this function)
> associate.c:401: error: 'NEIGHBOR_ITEM' has no member named 'string'
> associate.c:403: error: 'NEIGHBOR_ITEM' has no member named 'string'
> associate.c:408: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:419: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:427: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:433: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c: In function 'usage':
> associate.c:458: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:458: error: 'stderr' undeclared (first use in this function)
> associate.c: In function 'check_args':
> associate.c:481: warning: incompatible implicit declaration of built-in
> function 'fprintf'
> associate.c:481: error: 'stderr' undeclared (first use in this function)
> associate.c: At top level:
> associate.c:495: error: expected ')' before '*' token
> associate.c:512: error: expected ')' before 'query_vector'
> *********************************************
>
> Has anyone ever tried to augment the number of neighbors before? Could
> anyone help me?
> With many thanks,
> Catherine.
>
> -------------------------------------------------------------------------
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>

[infomap-nlp-users] help modifying associate.h and compiling associate.c

[Catherine C. <cca...@in...>]

Hi,

Happy new year everyone. I'm a PhD student working on biomedial=20
literature mining at the University of Edinburgh. I'd like to run=20
Infomap and retreive about 500 documents. I tried "associate -d -n 500=20
-t -c model/ query" and I got the following message:
*********************************************
Number of neighbors can be at most 200; printing 200.
(Edit associate.h and recompile to change.)
*********************************************

I then modified associate.h accordingly and tried to compile gcc=20
associate.c, I got:
*********************************************
In file included from associate.h:37,
from associate.c:34:
list.h:45:17: error: env.h: No such file or directory
In file included from associate.h:39,
from associate.c:34:
search_types.h:40: error: expected specifier-qualifier-list before=20
=91MATRIX_TYPE=92
In file included from query.h:46,
from associate.h:40,
from associate.c:34:
files.h:49: error: expected specifier-qualifier-list before =91FILE=92
In file included from associate.h:40,
from associate.c:34:
query.h:54: error: expected declaration specifiers or =91...=92 before=20
=91MATRIX_TYPE=92
query.h:55: error: expected declaration specifiers or =91...=92 before=20
=91MATRIX_TYPE=92
In file included from associate.c:34:
associate.h:58: error: expected =91)=92 before =91*=92 token
associate.c:37:23: error: filenames.h: No such file or directory
associate.c:38:26: error: model_params.h: No such file or directory
associate.c:58: error: expected =91)=92 before =91query_vector=92
associate.c:61: error: expected =91=3D=92, =91,=92, =91;=92, =91asm=92 or=
 =91__attribute__=92=20
before =91model_params=92
associate.c: In function =91main=92:
associate.c:64: error: =91DBM=92 undeclared (first use in this function)
associate.c:64: error: (Each undeclared identifier is reported only once
associate.c:64: error: for each function it appears in.)
associate.c:64: error: =91nu2na=92 undeclared (first use in this function=
)
associate.c:66: error: =91MATRIX_TYPE=92 undeclared (first use in this fu=
nction)
associate.c:66: error: =91queryvector=92 undeclared (first use in this fu=
nction)
associate.c:72: error: =91datum=92 undeclared (first use in this function=
)
associate.c:72: error: expected =91;=92 before =91key=92
associate.c:73: error: =91BUFSIZ=92 undeclared (first use in this functio=
n)
associate.c:96: error: =91FILE=92 undeclared (first use in this function)
associate.c:96: error: =91vectorfile=92 undeclared (first use in this fun=
ction)
associate.c:119: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:119: error: =91stderr=92 undeclared (first use in this functi=
on)
associate.c:134: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:142: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:149: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:157: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:166: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:180: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:194: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:217: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:230: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:238: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:247: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:263: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:278: warning: incompatible implicit declaration of built-in=20
function =91sprintf=92
associate.c:290: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:294: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:301: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:304: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:315: warning: incompatible implicit declaration of built-in=20
function =91sprintf=92
associate.c:315: error: =91MODEL_PARAMS_BIN_FILE=92 undeclared (first use=
 in=20
this function)
associate.c:316: error: =91model_params=92 undeclared (first use in this=20
function)
associate.c:317: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:323: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:330: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:334: error: =91MANY_FILES=92 undeclared (first use in this fu=
nction)
associate.c:335: error: =91NUMBER2NAME_FILE=92 undeclared (first use in t=
his=20
function)
associate.c:336: error: =91O_RDONLY=92 undeclared (first use in this func=
tion)
associate.c:344: error: too many arguments to function =91build_query_vec=
tor=92
associate.c:345: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:352: error: =91FILES=92 has no member named =91wordvecbin=92
associate.c:355: error: =91FILES=92 has no member named =91artvecbin=92
associate.c:362: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:368: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:380: error: =91key=92 undeclared (first use in this function)
associate.c:380: error: =91NEIGHBOR_ITEM=92 has no member named =91offset=
=92
associate.c:381: error: =91NEIGHBOR_ITEM=92 has no member named =91offset=
=92
associate.c:382: error: =91content=92 undeclared (first use in this funct=
ion)
associate.c:382: error: =91FILES=92 has no member named =91o2w=92
associate.c:383: error: =91NEIGHBOR_ITEM=92 has no member named =91string=
=92
associate.c:385: error: =91NEIGHBOR_ITEM=92 has no member named =91string=
=92
associate.c:389: error: =91NEIGHBOR_ITEM=92 has no member named =91offset=
=92
associate.c:390: error: =91NEIGHBOR_ITEM=92 has no member named =91offset=
=92
associate.c:391: error: =91FILES=92 has no member named =91o2a=92
associate.c:394: error: =91ONE_FILE=92 undeclared (first use in this func=
tion)
associate.c:395: error: =91NEIGHBOR_ITEM=92 has no member named =91string=
=92
associate.c:400: error: =91content2=92 undeclared (first use in this func=
tion)
associate.c:401: error: =91NEIGHBOR_ITEM=92 has no member named =91string=
=92
associate.c:403: error: =91NEIGHBOR_ITEM=92 has no member named =91string=
=92
associate.c:408: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:419: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:427: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:433: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c: In function =91usage=92:
associate.c:458: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:458: error: =91stderr=92 undeclared (first use in this functi=
on)
associate.c: In function =91check_args=92:
associate.c:481: warning: incompatible implicit declaration of built-in=20
function =91fprintf=92
associate.c:481: error: =91stderr=92 undeclared (first use in this functi=
on)
associate.c: At top level:
associate.c:495: error: expected =91)=92 before =91*=92 token
associate.c:512: error: expected =91)=92 before =91query_vector=92
*********************************************

Has anyone ever tried to augment the number of neighbors before? Could=20
anyone help me?
With many thanks,
Catherine.

Re: [infomap-nlp-users] troubleshooting infomap-nlp infomap-build

[Scott C. <ced...@gm...>]

It looks like it is the svdinterface command that is producing the seg
fault.  To narrow down further from there, try using the GNU debugger
(gdb) and running svdinterface by hand from within gdb.

This command must be run from within the Infomap "working
directory"... from your output below it looks like this directory is
/disk/global1/marieg/infomap_models/ad/.  Change into that directory,
then do the following:

    [marieg@docenten /disk/global1/marieg/infomap_models/ad]$ gdb svdinterface
    ...
    (gdb) run -singvals 100 -iter 100
    ...
    Program received signal SIGSEGV, Segmentation fault.
    0x ....
    (gdb) bt
    #0 0x...
    #1 ....
    ...
    (gdb) q
    The program is running.  Exit anyway? (y or n) y
    [marieg@docenten /disk/global1/marieg/infomap_models/ad]$

Copy the entire output from gdb (most important is the backtrace
generated by the bt command, but you may as well include everything).
I'll take a look at that and see what I can make of it.

Also, what operating system (and version) are you running?


                            Scott


On 11/14/06, Marie Gustafsson <mag...@ps...> wrote:
> I have installed the infomap-program in Sweden in my research on language on
> media. My hope is that this program will make it possible for me to analyse
> large text corpuras.
>
> I do the installation using the ./configure --prefix command. When I try to buld
> a model i get the same errors consequently (tried on both small and large single
> corpuras -s).
>
> My hope is that you can provide som help on the error reports i get. It seems
> like the computer tries to malloc to much space (I am not an engineer, so I hope
> I make myself understood).
>
> Yours sincerely,
> Marie Gustafsson
> PhD Student, University of Stockholm, Sweden
> +46 708 77 44 49
>
> Here is my error report
>
> [marieg@docenten marieg]$ more test.scr.e441582
> Locale set to en_US.
> Opening File for "r":
>         "/disk/global1/marieg/install/share/infomap-nlp/valid_chars.en"
> Opening File for "r":
>         ""
> my_fopen: No such file or directory
> Opening File for "r":
>         "/disk/global1/marieg/install/share/infomap-nlp/stop.list"
> Opening File for "w":
>         "/disk/global1/marieg/infomap_models/ad/wordlist"
> Opening File for "r":
>         "/disk/global1/marieg/AD_2000-2006/ad2000-2001.txt"
> Opening File for "w":
>         "/disk/global1/marieg/infomap_models/ad/numDocs"
> Typecount = 282352
> Preparing to sort ... Sorting ... Done.
> Opening File for "w":
>         "/disk/global1/marieg/infomap_models/ad/dic"
> model data dir is "/disk/global1/marieg/infomap_models/ad".
> Reading the dictionary... Opening File for "r":
>         "/disk/global1/marieg/infomap_models/ad/dic"
> Opening File for "r":
>         "/disk/global1/marieg/infomap_models/ad/numDocs"
> Initializing row indices...Done.
> Initializing column indices...Done.
> Allocating matrix memory...done.
> Initializing matrix...done.
> model data dir is "/disk/global1/marieg/infomap_models/ad".
> count_wordvec.c: about to call process_wordlist
> Entering process_wordlist.
> About to call initialize_wordlist.
> Opening File for "r":
>         "/disk/global1/marieg/infomap_models/ad/wordlist"
> Returned from initialize_wordlist.
> Writing the co-occurrence matrix.
> Opening File for "w":
>         "/disk/global1/marieg/infomap_models/ad/coll"
> Opening File for "w":
>         "/disk/global1/marieg/infomap_models/ad/indx"
> make: Warning: File `/disk/global1/marieg/infomap_models/ad/indx' has modificati
> on time 0.039 s in the future
>
>   This is svdinterface.
>
>   Writing to: left
>   Writing to: rght
>   Writing to: sing
>   Writing to: svd_diag
>   Reading: indx
>   Reading: indx
>   Reading: coll
> /bin/sh: line 1: 15703 Segmentation fault      svdinterface -singvals 100 -iter
> 100
> make: *** [/disk/global1/marieg/infomap_models/ad/left] Error 139
>
> --
> ==============================
> Marie Gustafsson
> Department of Psychology
> Stockholm University
> SE-106 91 Stockholm, SWEDEN
> Tel +46 8 - 16 39 46
> Cell phone +46 708 77 44 49
> mg...@ps...
> ==============================
>
>
> -------------------------------------------------------------------------
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>