Re: [AMOS-help] Problems installing minimus

[Michael S. <ms...@um...>]

Dr. Schaffer,

I'm glad to hear it worked for you. Let us know if you have any more problems,

Mike Schatz

On 11/26/07, Alejandro Schaffer <sch...@he...> wrote:
>
> Dear Dr. Schatz,
>
>    Thank you for the corrected instructions.
> They seem to work.
> The erroneous instructions that I followed are at:
> http://amos.sourceforge.net/docs/pipeline/minimus.html
> so you might want to fix that page.
>
> In case you do want to fix the page, I see one other
> typo there.
> It says:
> "Documentation on running minimus is included with the distribution in the
> /docs subdirectory."
>
> However, the documentation is actually in the directory
> [singular] /doc
>
> Thanks,
> Alejandro Schaffer
> National Institutes of Health
>
>
> On Mon, 26 Nov 2007, Michael Schatz wrote:
>
> > Hi Dr. Schafer,
> >
> > Nucmer and Qt3 are not necessary for minimus. However, if you want to
> > use our Assembly viewer, Hawkeye
> > (http://amos.sourceforge.net/hawkeye), you will need Qt3. The latest
> > version of Qt 3 is available at:
> >
> > ftp://ftp.trolltech.com/qt/source/qt-x11-free-3.3.8.tar.gz
> >
> > The error you hit is because you tried to use --disable-all
> > --enable-minimus, but that functionality is currently broken. Please
> > try again with just "./configure" and no options. It will take a
> > little longer, but will work around your build issue.
> >
> > Good luck, and please let us know if you have any other problems.
> >
> > -Mike Schatz
> >
> >
> >
> >> Question 1. Are either of the modules
> >>   nucmer
> >>   Qt3
> >> necessary for minimus?
> >
> >
> >> Question 2.If so, from where can I retrieve the pertinent
> >> files?
> >>
> >> I assumed that the two modules were not necessary for
> >> minimus and proceeded to:
> >>
> >> make all
> >>
> >> This gave me the error message:
> >>
> >> -------------------------------------------
> >> make[3]: Entering directory `/export/home/schaffer/amos-2.0.4/src/Bank'
> >> g++ -DHAVE_CONFIG_H -I. -I../..  -I../../src/CelMsg -I../../src/Common -I../../src/Slice -I../../src/AMOS -I../../src/Foundation   -g -O2 -MT bank2contig.o -MD -MP -MF .deps/bank2contig.Tpo -c -o bank2contig.o bank2contig.cc
> >> mv -f .deps/bank2contig.Tpo .deps/bank2contig.Po
> >> make[3]: *** No rule to make target `../../src/Foundation/libAMOSFoundation.a', needed by `bank2contig'.  Stop.
> >> make[3]: Leaving directory `/export/home/schaffer/amos-2.0.4/src/Bank'
> >> make[2]: *** [all-recursive] Error 1
> >> make[2]: Leaving directory `/export/home/schaffer/amos-2.0.4/src'
> >> make[1]: *** [all-recursive] Error 1
> >> make[1]: Leaving directory `/export/home/schaffer/amos-2.0.4'
> >> make: *** [all] Error 2
> >> ----------------------------------------
> >>
> >> Question 3. How can I avoid or work-around this error?
> >>
> >> Question 4. Is it really necessary to
> >>   make all
> >> to install minimus, or is there a smaller
> >> set of targets that would be adequate?
> >>
> >> Sincerely,
> >> Alejandro Schaffer, Ph.D.
> >> National Institutes of Health
> >>
> >>
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