From: Vlad Cojocaru (vlad.cojocaru_at_mpi-muenster.mpg.de)
Date: Wed Aug 22 2012 - 10:16:36 CDT

Hi John,

Here they are:

gcc (SUSE Linux) 4.6.2
Copyright (C) 2011 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

g++ (SUSE Linux) 4.6.2
Copyright (C) 2011 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

nvcc: NVIDIA (R) Cuda compiler driver
Copyright (c) 2005-2012 NVIDIA Corporation
Built on Thu_Apr__5_00:24:31_PDT_2012
Cuda compilation tools, release 4.2, V0.2.1221

Best,
Vlad

On 08/22/2012 05:12 PM, John Stone wrote:
> Vlad,
> I've never seen that error before. I've been compiling VMD with
> CUDA 4.0 and with the latest CUDA 5.0 release candidate, but I
> haven't ever tried with version 4.2.9. Can you email me the output
> you get from:
> uname -a
> gcc --version
> g++ --version
> nvcc --version
>
> Cheers,
> John
>
> On Wed, Aug 22, 2012 at 04:49:16PM +0200, Vlad Cojocaru wrote:
>> Thanks John,
>>
>> I read through the VMD CVS documentation and I realized that this a new
>> plugin .. I retrieved it and not the plugins built properly.
>> However, I have another problem, which seems to be related to CUDA. When
>> I build VMD, I get the error below. I am using cuda 4.2.9.
>>
>> Best,
>> Vlad
>>
>> tmpxft_00000c64_00000000-6_CUDAQuickSurf.compute_20.cudafe1.cpp:(.text+0x2820):
>> undefined reference to `CUDAMarchingCubes::~CUDAMarchingCubes()'
>> tmpxft_00000c64_00000000-6_CUDAQuickSurf.compute_20.cudafe1.cpp:(.text+0x283d):
>> undefined reference to `CUDAMarchingCubes::CUDAMarchingCubes()'
>> tmpxft_00000c64_00000000-6_CUDAQuickSurf.compute_20.cudafe1.cpp:(.text+0x2858):
>> undefined reference to `CUDAMarchingCubes::Initialize(uint3)'
>> tmpxft_00000c64_00000000-6_CUDAQuickSurf.compute_20.cudafe1.cpp:(.text+0x2cc4):
>> undefined reference to `CUDAMarchingCubes::SetVolumeData(float*, float*,
>> uint3, float3, float3, bool)'
>> tmpxft_00000c64_00000000-6_CUDAQuickSurf.compute_20.cudafe1.cpp:(.text+0x2d6d):
>> undefined reference to `CUDAMarchingCubes::SetSubVolume(uint3, uint3)'
>> tmpxft_00000c64_00000000-6_CUDAQuickSurf.compute_20.cudafe1.cpp:(.text+0x2d8d):
>> undefined reference to `CUDAMarchingCubes::computeIsosurface(float3*,
>> float3*, float3*, unsigned int)'
>> tmpxft_00000c64_00000000-6_CUDAQuickSurf.compute_20.cudafe1.cpp:(.text+0x2e01):
>> undefined reference to `DispCmdTriMesh::cuda_putdata(float const*, float
>> const*, float const*, int, VMDDisplayList*)'
>> tmpxft_00000c64_00000000-6_CUDAQuickSurf.compute_20.cudafe1.cpp:(.text+0x30de):
>> undefined reference to `DispCmdTriMesh::cuda_putdata(float const*, float
>> const*, float const*, int, VMDDisplayList*)'
>> tmpxft_00000c64_00000000-6_CUDAQuickSurf.compute_20.cudafe1.cpp:(.text+0x33af):
>> undefined reference to `CUDAMarchingCubes::CUDAMarchingCubes()'
>> tmpxft_00000c64_00000000-6_CUDAQuickSurf.compute_20.cudafe1.cpp:(.text+0x33ca):
>> undefined reference to `CUDAMarchingCubes::Initialize(uint3)'
>> collect2: ld returned 1 exit status
>> make: *** [vmd_LINUXAMD64] Error 1
>>
>> On 08/22/2012 04:34 PM, John Stone wrote:
>>> Vlad,
>>> Please try doing a "cvs update -PAd" in the top level plugins directory
>>> to make sure you get the new vmdprefs plugin. That should solve the error
>>> you got below.
>>>
>>> Cheers,
>>> John Stone
>>> vmd_at_ks.uiuc.edu
>>>
>>> On Wed, Aug 22, 2012 at 11:41:21AM +0200, Vlad Cojocaru wrote:
>>>> Thanks John,
>>>>
>>>> I updated the CVS but now I get other missing directory error (see below):
>>>>
>>>> Best,
>>>> Vlad
>>>>
>>>> Copying volutil 1.3 files to
>>>> Copying vmddebug 1.0 files to
>>>> /usr/local/apps/vmd/2012-08-21-SRC/lib/plugins/noarch/tcl/vmddebug1.0
>>>> Copying vmdmovie 1.9 files to
>>>> /usr/local/apps/vmd/2012-08-21-SRC/lib/plugins/noarch/tcl/vmdmovie1.9
>>>> /bin/sh: line 0: cd: vmdprefs: No such file or directory
>>>> make: *** [distrib] Error 1
>>>>
>>>> On 08/21/2012 06:06 PM, Vlad Cojocaru wrote:
>>>>> Dear all,
>>>>>
>>>>> I am trying to compile the vmd cvs code downloaded today and while
>>>>> building the plugins, I get the error below (build script also
>>>>> provided below).
>>>>> It looks as if some gif files are missing .... Does anybody know how
>>>>> to fix this ?
>>>>>
>>>>> Thanks
>>>>> Vlad
>>>>>
>>>>> ----------------script used to build plugins ----------------
>>>>> #!/bin/bash
>>>>>
>>>>> export TCLINC="-I/usr/include"
>>>>> export TCLLIB="-L/usr/lib64"
>>>>>
>>>>> export NETCDFINC="-I/usr/include"
>>>>> export NETCDFLIB="-I/usr/lib64"
>>>>>
>>>>> make clean
>>>>> make LINUXAMD64 TCLINC=$TCLINC TCLLIB=$TCLLIB NETCDFINC=$NETCDFINC
>>>>> NETCDFLIB=$NETCDFLIB 2>&1 | tee make.log
>>>>> export PLUGINDIR="/usr/local/apps/vmd/2012-08-21-SRC/lib/plugins"
>>>>> make distrib 2>&1 | tee make_distrib.log
>>>>>
>>>>> exit
>>>>>
>>>>> -----------------error--------------------
>>>>> Copying molfile plugins to
>>>>> /usr/local/apps/vmd/2012-08-21-SRC/lib/plugins destination area
>>>>> abinitplugin.so ...
>>>>> biomoccaplugin.so ...
>>>>> cpmdplugin.so ...
>>>>> psfplugin.so ...
>>>>> pdbplugin.so ...
>>>>> dcdplugin.so ...
>>>>> babelplugin.so ...
>>>>> gromacsplugin.so ...
>>>>> parmplugin.so ...
>>>>> crdplugin.so ...
>>>>> namdbinplugin.so ...
>>>>> binposplugin.so ...
>>>>> graspplugin.so ...
>>>>> msmsplugin.so ...
>>>>> stlplugin.so ...
>>>>> offplugin.so ...
>>>>> cubeplugin.so ...
>>>>> edmplugin.so ...
>>>>> ccp4plugin.so ...
>>>>> dsn6plugin.so ...
>>>>> brixplugin.so ...
>>>>> pltplugin.so ...
>>>>> raster3dplugin.so ...
>>>>> parm7plugin.so ...
>>>>> rst7plugin.so ...
>>>>> tinkerplugin.so ...
>>>>> uhbdplugin.so ...
>>>>> vaspchgcarplugin.so ...
>>>>> vaspparchgplugin.so ...
>>>>> vaspposcarplugin.so ...
>>>>> vaspoutcarplugin.so ...
>>>>> vaspxdatcarplugin.so ...
>>>>> vaspxmlplugin.so ...
>>>>> dlpolyplugin.so ...
>>>>> lammpsplugin.so ...
>>>>> vtfplugin.so ...
>>>>> xyzplugin.so ...
>>>>> corplugin.so ...
>>>>> moldenplugin.so ...
>>>>> phiplugin.so ...
>>>>> pbeqplugin.so ...
>>>>> grdplugin.so ...
>>>>> situsplugin.so ...
>>>>> dxplugin.so ...
>>>>> spiderplugin.so ...
>>>>> mapplugin.so ...
>>>>> avsplugin.so ...
>>>>> fs4plugin.so ...
>>>>> pqrplugin.so ...
>>>>> mol2plugin.so ...
>>>>> gridplugin.so ...
>>>>> carplugin.so ...
>>>>> mdfplugin.so ...
>>>>> gamessplugin.so ...
>>>>> xsfplugin.so ...
>>>>> bgfplugin.so ...
>>>>> xbgfplugin.so ...
>>>>> jsplugin.so ...
>>>>> dtrplugin.so ...
>>>>> maeffplugin.so ...
>>>>> basissetplugin.so ...
>>>>> webpdbplugin.so ...
>>>>> netcdfplugin.so ...
>>>>> hoomdplugin.so ...
>>>>> dmsplugin.so ...
>>>>> libmolfile_plugin.a ...
>>>>> libmolfile_plugin.h ...
>>>>> libmolfile_plugin.lib ...
>>>>> libmolfile_plugin.h ...
>>>>> Copying apbsrun 1.3 files to
>>>>> /usr/local/apps/vmd/2012-08-21-SRC/lib/plugins/noarch/tcl/apbsrun1.3
>>>>> Copying atomedit 1.0 files to
>>>>> /usr/local/apps/vmd/2012-08-21-SRC/lib/plugins/noarch/tcl/atomedit1.0
>>>>> This is pdfTeX, Version 3.1415926-2.3-1.40.12 (TeX Live 2011)
>>>>> restricted \write18 enabled.
>>>>> entering extended mode
>>>>> (./ug.tex
>>>>> LaTeX2e <2009/09/24>
>>>>> Babel <v3.8l> and hyphenation patterns for english, dumylang,
>>>>> nohyphenation, ge
>>>>> rman-x-2009-06-19, ngerman-x-2009-06-19, afrikaans, ancientgreek,
>>>>> ibycus, arabi
>>>>> c, armenian, basque, bulgarian, catalan, pinyin, coptic, croatian,
>>>>> czech, danis
>>>>> h, dutch, ukenglish, usenglishmax, esperanto, estonian, ethiopic,
>>>>> farsi, finnis
>>>>> h, french, galician, german, ngerman, swissgerman, monogreek, greek,
>>>>> hungarian,
>>>>> icelandic, assamese, bengali, gujarati, hindi, kannada, malayalam,
>>>>> marathi, or
>>>>> iya, panjabi, tamil, telugu, indonesian, interlingua, irish, italian,
>>>>> kurmanji,
>>>>> lao, latin, latvian, lithuanian, mongolian, mongolianlmc, bokmal,
>>>>> nynorsk, pol
>>>>> ish, portuguese, romanian, russian, sanskrit, serbian, serbianc,
>>>>> slovak, sloven
>>>>> ian, spanish, swedish, turkish, turkmen, ukrainian, uppersorbian,
>>>>> welsh, loaded
>>>>> .
>>>>> (/usr/share/texmf/tex/latex/base/article.cls
>>>>> Document Class: article 2007/10/19 v1.4h Standard LaTeX document class
>>>>> (/usr/share/texmf/tex/latex/base/size10.clo))
>>>>> (/usr/share/texmf/tex/latex/graphics/graphicx.sty
>>>>> (/usr/share/texmf/tex/latex/graphics/keyval.sty)
>>>>> (/usr/share/texmf/tex/latex/graphics/graphics.sty
>>>>> (/usr/share/texmf/tex/latex/graphics/trig.sty)
>>>>> (/usr/share/texmf/tex/latex/latexconfig/graphics.cfg)
>>>>> (/usr/share/texmf/tex/latex/pdftex-def/pdftex.def
>>>>> (/usr/share/texmf/tex/generic/oberdiek/infwarerr.sty)
>>>>> (/usr/share/texmf/tex/generic/oberdiek/ltxcmds.sty))))
>>>>> (/usr/lib/texmf/tex/latex/html/html.sty
>>>>> (/usr/share/texmf/tex/latex/hyperref/hyperref.sty
>>>>> (/usr/share/texmf/tex/generic/oberdiek/hobsub-hyperref.sty
>>>>> (/usr/share/texmf/tex/generic/oberdiek/hobsub-generic.sty))
>>>>> (/usr/share/texmf/tex/generic/ifxetex/ifxetex.sty)
>>>>> (/usr/share/texmf/tex/latex/oberdiek/kvoptions.sty)
>>>>> (/usr/share/texmf/tex/latex/hyperref/pd1enc.def)
>>>>> (/usr/share/texmf/tex/latex/latexconfig/hyperref.cfg)
>>>>> (/usr/share/texmf/tex/latex/url/url.sty))
>>>>>
>>>>> Package hyperref Message: Driver (autodetected): hpdftex.
>>>>>
>>>>> (/usr/share/texmf/tex/latex/hyperref/hpdftex.def
>>>>> (/usr/share/texmf/tex/latex/oberdiek/rerunfilecheck.sty)))
>>>>> (./ug_macros.tex)
>>>>> No file ug.aux.
>>>>> (/usr/share/texmf/tex/context/base/supp-pdf.mkii
>>>>> [Loading MPS to PDF converter (version 2006.09.02).]
>>>>> ) (/usr/share/texmf/tex/latex/oberdiek/epstopdf-base.sty
>>>>> (/usr/share/texmf/tex/latex/oberdiek/grfext.sty)
>>>>> (/usr/share/texmf/tex/latex/latexconfig/epstopdf-sys.cfg))
>>>>> (/usr/share/texmf/tex/latex/hyperref/nameref.sty
>>>>> (/usr/share/texmf/tex/generic/oberdiek/gettitlestring.sty))
>>>>> (./ug_title.tex)
>>>>> [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./ug_text.tex
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 10--11
>>>>>
>>>>> (/usr/share/texmf/tex/latex/base/omscmr.fd)
>>>>> <autoimd-diagram.pdf, id=19, 301.125pt x 288.07625pt>
>>>>> <use autoimd-diagram.pdf>
>>>>>
>>>>> LaTeX Warning: Reference `fig:autoimd-diagram' on page 3 undefined on
>>>>> input lin
>>>>> e 31.
>>>>>
>>>>> [3 <./autoimd-diagram.pdf>]
>>>>>
>>>>> LaTeX Warning: Reference `par:customize' on page 4 undefined on input
>>>>> line 58.
>>>>>
>>>>>
>>>>> LaTeX Warning: Reference `fig:autoimd-GUI' on page 4 undefined on
>>>>> input line 78
>>>>> .
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 78--79
>>>>>
>>>>> <autoimd-GUI.pdf, id=45, 431.6125pt x 298.11375pt> <use autoimd-GUI.pdf>
>>>>>
>>>>> LaTeX Warning: Reference `fig:simsettings-GUI' on page 4 undefined on
>>>>> input lin
>>>>> e 85.
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 85--86
>>>>>
>>>>> <simsettings-GUI.pdf, id=46, 543.02875pt x 443.6575pt>
>>>>> <use simsettings-GUI.pdf>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 91--92
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 96--97
>>>>>
>>>>> [4 <./autoimd-GUI.pdf>]
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 100--101
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 104--105
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 106--107
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 111--112
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 115--116
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 118--119
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 125--126
>>>>>
>>>>> [5 <./simsettings-GUI.pdf>]
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 130--131
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 134--135
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 140--141
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 170--171
>>>>>
>>>>> [6]
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 194--195
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 207--208
>>>>>
>>>>> [7]
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 254--255
>>>>>
>>>>> ) [8] (./ug.aux)
>>>>>
>>>>> Package rerunfilecheck Warning: File `ug.out' has changed.
>>>>> (rerunfilecheck) Rerun to get outlines right
>>>>> (rerunfilecheck) or use package `bookmark'.
>>>>>
>>>>>
>>>>> LaTeX Warning: There were undefined references.
>>>>>
>>>>>
>>>>> LaTeX Warning: Label(s) may have changed. Rerun to get
>>>>> cross-references right.
>>>>>
>>>>> )
>>>>> (see the transcript file for additional
>>>>> information)</usr/share/texmf/fonts/typ
>>>>> e1/public/amsfonts/cm/cmbx10.pfb></usr/share/texmf/fonts/type1/public/amsfonts/
>>>>>
>>>>> cm/cmbx12.pfb></usr/share/texmf/fonts/type1/public/amsfonts/cm/cmbx8.pfb></usr/
>>>>>
>>>>> share/texmf/fonts/type1/public/amsfonts/cm/cmr10.pfb></usr/share/texmf/fonts/ty
>>>>>
>>>>> pe1/public/amsfonts/cm/cmr12.pfb></usr/share/texmf/fonts/type1/public/amsfonts/
>>>>>
>>>>> cm/cmr17.pfb></usr/share/texmf/fonts/type1/public/amsfonts/cm/cmr6.pfb></usr/sh
>>>>>
>>>>> are/texmf/fonts/type1/public/amsfonts/cm/cmr7.pfb></usr/share/texmf/fonts/type1
>>>>>
>>>>> /public/amsfonts/cm/cmr8.pfb></usr/share/texmf/fonts/type1/public/amsfonts/cm/c
>>>>>
>>>>> msl8.pfb></usr/share/texmf/fonts/type1/public/amsfonts/cm/cmsy10.pfb></usr/shar
>>>>>
>>>>> e/texmf/fonts/type1/public/amsfonts/cm/cmti10.pfb></usr/share/texmf/fonts/type1
>>>>>
>>>>> /public/amsfonts/cm/cmtt10.pfb>
>>>>> Output written on ug.pdf (8 pages, 319257 bytes).
>>>>> Transcript written on ug.log.
>>>>> This is pdfTeX, Version 3.1415926-2.3-1.40.12 (TeX Live 2011)
>>>>> restricted \write18 enabled.
>>>>> entering extended mode
>>>>> (./ug.tex
>>>>> LaTeX2e <2009/09/24>
>>>>> Babel <v3.8l> and hyphenation patterns for english, dumylang,
>>>>> nohyphenation, ge
>>>>> rman-x-2009-06-19, ngerman-x-2009-06-19, afrikaans, ancientgreek,
>>>>> ibycus, arabi
>>>>> c, armenian, basque, bulgarian, catalan, pinyin, coptic, croatian,
>>>>> czech, danis
>>>>> h, dutch, ukenglish, usenglishmax, esperanto, estonian, ethiopic,
>>>>> farsi, finnis
>>>>> h, french, galician, german, ngerman, swissgerman, monogreek, greek,
>>>>> hungarian,
>>>>> icelandic, assamese, bengali, gujarati, hindi, kannada, malayalam,
>>>>> marathi, or
>>>>> iya, panjabi, tamil, telugu, indonesian, interlingua, irish, italian,
>>>>> kurmanji,
>>>>> lao, latin, latvian, lithuanian, mongolian, mongolianlmc, bokmal,
>>>>> nynorsk, pol
>>>>> ish, portuguese, romanian, russian, sanskrit, serbian, serbianc,
>>>>> slovak, sloven
>>>>> ian, spanish, swedish, turkish, turkmen, ukrainian, uppersorbian,
>>>>> welsh, loaded
>>>>> .
>>>>> (/usr/share/texmf/tex/latex/base/article.cls
>>>>> Document Class: article 2007/10/19 v1.4h Standard LaTeX document class
>>>>> (/usr/share/texmf/tex/latex/base/size10.clo))
>>>>> (/usr/share/texmf/tex/latex/graphics/graphicx.sty
>>>>> (/usr/share/texmf/tex/latex/graphics/keyval.sty)
>>>>> (/usr/share/texmf/tex/latex/graphics/graphics.sty
>>>>> (/usr/share/texmf/tex/latex/graphics/trig.sty)
>>>>> (/usr/share/texmf/tex/latex/latexconfig/graphics.cfg)
>>>>> (/usr/share/texmf/tex/latex/pdftex-def/pdftex.def
>>>>> (/usr/share/texmf/tex/generic/oberdiek/infwarerr.sty)
>>>>> (/usr/share/texmf/tex/generic/oberdiek/ltxcmds.sty))))
>>>>> (/usr/lib/texmf/tex/latex/html/html.sty
>>>>> (/usr/share/texmf/tex/latex/hyperref/hyperref.sty
>>>>> (/usr/share/texmf/tex/generic/oberdiek/hobsub-hyperref.sty
>>>>> (/usr/share/texmf/tex/generic/oberdiek/hobsub-generic.sty))
>>>>> (/usr/share/texmf/tex/generic/ifxetex/ifxetex.sty)
>>>>> (/usr/share/texmf/tex/latex/oberdiek/kvoptions.sty)
>>>>> (/usr/share/texmf/tex/latex/hyperref/pd1enc.def)
>>>>> (/usr/share/texmf/tex/latex/latexconfig/hyperref.cfg)
>>>>> (/usr/share/texmf/tex/latex/url/url.sty))
>>>>>
>>>>> Package hyperref Message: Driver (autodetected): hpdftex.
>>>>>
>>>>> (/usr/share/texmf/tex/latex/hyperref/hpdftex.def
>>>>> (/usr/share/texmf/tex/latex/oberdiek/rerunfilecheck.sty)))
>>>>> (./ug_macros.tex)
>>>>> (./ug.aux) (/usr/share/texmf/tex/context/base/supp-pdf.mkii
>>>>> [Loading MPS to PDF converter (version 2006.09.02).]
>>>>> ) (/usr/share/texmf/tex/latex/oberdiek/epstopdf-base.sty
>>>>> (/usr/share/texmf/tex/latex/oberdiek/grfext.sty)
>>>>> (/usr/share/texmf/tex/latex/latexconfig/epstopdf-sys.cfg))
>>>>> (/usr/share/texmf/tex/latex/hyperref/nameref.sty
>>>>> (/usr/share/texmf/tex/generic/oberdiek/gettitlestring.sty)) (./ug.out)
>>>>> (./ug.out) (./ug_title.tex)
>>>>> [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.ma
>>>>> p}] (./ug.toc) [2] (./ug_text.tex
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 10--11
>>>>>
>>>>> (/usr/share/texmf/tex/latex/base/omscmr.fd)
>>>>> <autoimd-diagram.pdf, id=55, 301.125pt x 288.07625pt>
>>>>> <use autoimd-diagram.pdf> [3 <./autoimd-diagram.pdf>]
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 78--79
>>>>>
>>>>> <autoimd-GUI.pdf, id=82, 431.6125pt x 298.11375pt> <use autoimd-GUI.pdf>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 85--86
>>>>>
>>>>> <simsettings-GUI.pdf, id=84, 543.02875pt x 443.6575pt>
>>>>> <use simsettings-GUI.pdf>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 91--92
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 96--97
>>>>>
>>>>> [4 <./autoimd-GUI.pdf>]
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 100--101
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 104--105
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 106--107
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 111--112
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 115--116
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 118--119
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 125--126
>>>>>
>>>>> [5 <./simsettings-GUI.pdf>]
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 130--131
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 134--135
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 140--141
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 170--171
>>>>>
>>>>> [6]
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 194--195
>>>>>
>>>>>
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 207--208
>>>>>
>>>>> [7]
>>>>> Underfull \hbox (badness 10000) in paragraph at lines 254--255
>>>>>
>>>>> ) [8] (./ug.aux) )
>>>>> (see the transcript file for additional
>>>>> information)</usr/share/texmf/fonts/typ
>>>>> e1/public/amsfonts/cm/cmbx10.pfb></usr/share/texmf/fonts/type1/public/amsfonts/
>>>>>
>>>>> cm/cmbx12.pfb></usr/share/texmf/fonts/type1/public/amsfonts/cm/cmbx8.pfb></usr/
>>>>>
>>>>> share/texmf/fonts/type1/public/amsfonts/cm/cmr10.pfb></usr/share/texmf/fonts/ty
>>>>>
>>>>> pe1/public/amsfonts/cm/cmr12.pfb></usr/share/texmf/fonts/type1/public/amsfonts/
>>>>>
>>>>> cm/cmr17.pfb></usr/share/texmf/fonts/type1/public/amsfonts/cm/cmr6.pfb></usr/sh
>>>>>
>>>>> are/texmf/fonts/type1/public/amsfonts/cm/cmr7.pfb></usr/share/texmf/fonts/type1
>>>>>
>>>>> /public/amsfonts/cm/cmr8.pfb></usr/share/texmf/fonts/type1/public/amsfonts/cm/c
>>>>>
>>>>> msl8.pfb></usr/share/texmf/fonts/type1/public/amsfonts/cm/cmsy10.pfb></usr/shar
>>>>>
>>>>> e/texmf/fonts/type1/public/amsfonts/cm/cmti10.pfb></usr/share/texmf/fonts/type1
>>>>>
>>>>> /public/amsfonts/cm/cmtt10.pfb>
>>>>> Output written on ug.pdf (8 pages, 322174 bytes).
>>>>> Transcript written on ug.log.
>>>>> Copying autoimd 1.7 files to
>>>>> /usr/local/apps/vmd/2012-08-21-SRC/lib/plugins/noarch/tcl/autoimd1.7
>>>>> Copying autoionize 1.3 files to
>>>>> /usr/local/apps/vmd/2012-08-21-SRC/lib/plugins/noarch/tcl/autoionize1.3
>>>>> Copying bendix 1.0 files to
>>>>> /usr/local/apps/vmd/2012-08-21-SRC/lib/plugins/noarch/tcl/bendix1.0
>>>>> cp: cannot stat `doc/GUI-tips.gif': No such file or directory
>>>>> cp: cannot stat `doc/Monsieur_Bendix_smaller_still.gif': No such file
>>>>> or directory
>>>>> make[1]: *** [distrib] Error 1
>>>>> make: *** [distrib] Error 1
>>>>>
>>>> --
>>>> Dr. Vlad Cojocaru
>>>> Max Planck Institute for Molecular Biomedicine
>>>> Department of Cell and Developmental Biology
>>>> Röntgenstrasse 20, 48149 Münster, Germany
>>>> Tel: +49-251-70365-324; Fax: +49-251-70365-399
>>>> Email: vlad.cojocaru[at]mpi-muenster.mpg.de
>>>> http://www.mpi-muenster.mpg.de/research/teams/groups/rgcojocaru
>>>>
>>>>
>> --
>> Dr. Vlad Cojocaru
>> Max Planck Institute for Molecular Biomedicine
>> Department of Cell and Developmental Biology
>> Röntgenstrasse 20, 48149 Münster, Germany
>> Tel: +49-251-70365-324; Fax: +49-251-70365-399
>> Email: vlad.cojocaru[at]mpi-muenster.mpg.de
>> http://www.mpi-muenster.mpg.de/research/teams/groups/rgcojocaru
>>
>>

-- 
Dr. Vlad Cojocaru
Max Planck Institute for Molecular Biomedicine
Department of Cell and Developmental Biology
Röntgenstrasse 20, 48149 Münster, Germany
Tel: +49-251-70365-324; Fax: +49-251-70365-399
Email: vlad.cojocaru[at]mpi-muenster.mpg.de
http://www.mpi-muenster.mpg.de/research/teams/groups/rgcojocaru