From debbugs-submit-bounces@debbugs.gnu.org Wed Apr 28 18:39:16 2021 Received: (at submit) by debbugs.gnu.org; 28 Apr 2021 22:39:16 +0000 Received: from localhost ([127.0.0.1]:54330 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1lbspv-00078g-Mp for submit@debbugs.gnu.org; Wed, 28 Apr 2021 18:39:16 -0400 Received: from lists.gnu.org ([209.51.188.17]:53368) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1lbqwX-0008Nz-4n for submit@debbugs.gnu.org; Wed, 28 Apr 2021 16:37:59 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:44378) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1lbqwW-0001uM-UX for bug-guix@gnu.org; Wed, 28 Apr 2021 16:37:56 -0400 Received: from relay9-d.mail.gandi.net ([217.70.183.199]:55065) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1lbqwT-0006YF-Tl for bug-guix@gnu.org; Wed, 28 Apr 2021 16:37:56 -0400 X-Originating-IP: 167.172.52.34 Received: from localhost (unknown [167.172.52.34]) (Authenticated sender: me@fabionatali.com) by relay9-d.mail.gandi.net (Postfix) with ESMTPSA id 10906FF803 for ; Wed, 28 Apr 2021 20:37:48 +0000 (UTC) Date: Wed, 28 Apr 2021 21:37:47 +0100 From: Fabio Natali To: bug-guix@gnu.org Subject: Issue with itk-snap (vtk-6?) Message-ID: MIME-Version: 1.0 Content-Type: multipart/mixed; boundary="IYGkrnnIjKN3FR9Y" Content-Disposition: inline Received-SPF: pass client-ip=217.70.183.199; envelope-from=me@fabionatali.com; helo=relay9-d.mail.gandi.net X-Spam_score_int: -24 X-Spam_score: -2.5 X-Spam_bar: -- X-Spam_report: (-2.5 / 5.0 requ) BAYES_00=-1.9, RCVD_IN_DNSWL_LOW=-0.7, RCVD_IN_MSPIKE_H2=-0.001, SPF_HELO_NONE=0.001, SPF_PASS=-0.001, URIBL_SBL_A=0.1 autolearn=ham autolearn_force=no X-Spam_action: no action X-Spam-Score: -0.9 (/) X-Debbugs-Envelope-To: submit X-Mailman-Approved-At: Wed, 28 Apr 2021 18:39:14 -0400 X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.9 (-) --IYGkrnnIjKN3FR9Y Content-Type: text/plain; charset=us-ascii Content-Disposition: inline Dear All, I seem to be having problems with the installation of an image processing application called ITK-SNAP [0, 1]. This is the error message I get: $ guix environment --pure --ad-hoc itk-snap The following derivations will be built: /gnu/store/qx7cx3gjqc709gla302yyaggbihq9kw0-itk-snap-3.8.0.drv /gnu/store/r3ndf5r2ck8n5h5sq4phipdvgmv5bagg-vtk-6.3.0.drv building /gnu/store/r3ndf5r2ck8n5h5sq4phipdvgmv5bagg-vtk-6.3.0.drv... | 'configure' phasebuilder for `/gnu/store/r3ndf5r2ck8n5h5sq4phipdvgmv5bagg-vtk-6.3.0.drv' failed with exit code 1 build of /gnu/store/r3ndf5r2ck8n5h5sq4phipdvgmv5bagg-vtk-6.3.0.drv failed View build log at '/var/log/guix/drvs/r3/ndf5r2ck8n5h5sq4phipdvgmv5bagg-vtk-6.3.0.drv.bz2'. cannot build derivation `/gnu/store/qx7cx3gjqc709gla302yyaggbihq9kw0-itk-snap-3.8.0.drv': 1 dependencies couldn't be built guix environment: error: build of `/gnu/store/qx7cx3gjqc709gla302yyaggbihq9kw0-itk-snap-3.8.0.drv' failed If I understand it correctly, this seems to indicate an underlying problem with vtk-6. As a matter of fact, this also fails: $ guix environment --pure --ad-hoc vtk@6.3.0 The following derivation will be built: /gnu/store/r3ndf5r2ck8n5h5sq4phipdvgmv5bagg-vtk-6.3.0.drv building /gnu/store/r3ndf5r2ck8n5h5sq4phipdvgmv5bagg-vtk-6.3.0.drv... - 'configure' phasebuilder for `/gnu/store/r3ndf5r2ck8n5h5sq4phipdvgmv5bagg-vtk-6.3.0.drv' failed with exit code 1 build of /gnu/store/r3ndf5r2ck8n5h5sq4phipdvgmv5bagg-vtk-6.3.0.drv failed View build log at '/var/log/guix/drvs/r3/ndf5r2ck8n5h5sq4phipdvgmv5bagg-vtk-6.3.0.drv.bz2'. guix environment: error: build of `/gnu/store/r3ndf5r2ck8n5h5sq4phipdvgmv5bagg-vtk-6.3.0.drv' failed The output of the following command is attached. $ bzcat /var/log/guix/drvs/r3/ndf5r2ck8n5h5sq4phipdvgmv5bagg\ -vtk-6.3.0.drv.bz2 | tail -n 50 Interestingly, a more recent version of vtk seems to install just fine. $ guix environment --pure --ad-hoc vtk [this works as expected] It may be worth to mention that I'm running Guix on a foreign distribution. This is how my guix self-describes itself: $ guix describe guix 8dcbd8a repository URL: https://git.savannah.gnu.org/git/guix.git branch: master commit: 8dcbd8a374f21f478f0059d4d62e364897e6e667 Is there anything you would suggest I could investigate to solve this? Many thanks, Fabio. - [0] http://www.itksnap.org/ - [1] https://git.savannah.gnu.org/cgit/guix.git/tree/gnu/packages/image-processing.scm?id=8dcbd8a374f21f478f0059d4d62e364897e6e667#n942 -- Fabio Natali https://fabionatali.com --IYGkrnnIjKN3FR9Y Content-Type: text/plain; charset=us-ascii Content-Disposition: attachment; filename=log Content-Transfer-Encoding: quoted-printable source directory: "/tmp/guix-build-vtk-6.3.0.drv-0/VTK-6.3.0" (relative fro= m build: "../VTK-6.3.0") build directory: "/tmp/guix-build-vtk-6.3.0.drv-0/build" running 'cmake' with arguments ("../VTK-6.3.0" "-DCMAKE_BUILD_TYPE=3DReleas= e" "-DCMAKE_INSTALL_PREFIX=3D/gnu/store/lpl2jjhy2yd4ipqasvw9frb6a2i7xnr3-vt= k-6.3.0" "-DCMAKE_INSTALL_LIBDIR=3Dlib" "-DCMAKE_INSTALL_RPATH_USE_LINK_PAT= H=3DTRUE" "-DCMAKE_INSTALL_RPATH=3D/gnu/store/lpl2jjhy2yd4ipqasvw9frb6a2i7x= nr3-vtk-6.3.0/lib" "-DCMAKE_VERBOSE_MAKEFILE=3DON" "-DVTK_USE_EXTERNAL=3DOF= F" "-DVTK_MODULE_USE_EXTERNAL_VTK_doubleconversion=3DON" "-DVTK_MODULE_USE_= EXTERNAL_VTK_eigen=3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_expat=3DON" "-DVTK_= MODULE_USE_EXTERNAL_VTK_freetype=3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_gl2ps= =3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_glew=3DON" "-DVTK_MODULE_USE_EXTERNAL= _VTK_hdf5=3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_jpeg=3DON" "-DVTK_MODULE_USE= _EXTERNAL_VTK_jsoncpp=3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_libproj=3DON" "-= DVTK_MODULE_USE_EXTERNAL_VTK_libxml2=3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_l= z4=3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_netcdf=3DON" "-DVTK_MODULE_USE_EXTE= RNAL_VTK_ogg=3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_png=3DON" "-DVTK_MODULE_U= SE_EXTERNAL_VTK_sqlite=3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_theora=3DON" "-= DVTK_MODULE_USE_EXTERNAL_VTK_tiff=3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_zlib= =3DON") -- The C compiler identification is GNU 7.5.0 -- The CXX compiler identification is GNU 7.5.0 -- Check for working C compiler: /gnu/store/rn75fm7adgx3pw5j8pg3bczfqq1y17l= k-gcc-7.5.0/bin/gcc -- Check for working C compiler: /gnu/store/rn75fm7adgx3pw5j8pg3bczfqq1y17l= k-gcc-7.5.0/bin/gcc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /gnu/store/rn75fm7adgx3pw5j8pg3bczfqq1y1= 7lk-gcc-7.5.0/bin/c++ -- Check for working CXX compiler: /gnu/store/rn75fm7adgx3pw5j8pg3bczfqq1y1= 7lk-gcc-7.5.0/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- Performing Test HAVE_GCC_ERROR_RETURN_TYPE -- Performing Test HAVE_GCC_ERROR_RETURN_TYPE - Success -- Performing Test HAVE_GCC_VISIBILITY -- Performing Test HAVE_GCC_VISIBILITY - Success CMake Error at CMake/vtkCompilerExtras.cmake:47 (if): if given arguments: "gcc: error: ARGS: No such file or directory gcc (GCC) 7.5.0 Copyright (C) 2017 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. =20 " "VERSION_GREATER" "4.2.0" "AND" "BUILD_SHARED_LIBS" "AND" "HAVE_GCC_VISIBILITY" "AND" "VTK_USE_GCC_VISIBILITY" "AND" "NOT" "MINGW" "AND" "NOT" "CYGWIN" Unknown arguments specified Call Stack (most recent call first): CMakeLists.txt:283 (include) -- Configuring incomplete, errors occurred! See also "/tmp/guix-build-vtk-6.3.0.drv-0/build/CMakeFiles/CMakeOutput.log". command "cmake" "../VTK-6.3.0" "-DCMAKE_BUILD_TYPE=3DRelease" "-DCMAKE_INST= ALL_PREFIX=3D/gnu/store/lpl2jjhy2yd4ipqasvw9frb6a2i7xnr3-vtk-6.3.0" "-DCMAK= E_INSTALL_LIBDIR=3Dlib" "-DCMAKE_INSTALL_RPATH_USE_LINK_PATH=3DTRUE" "-DCMA= KE_INSTALL_RPATH=3D/gnu/store/lpl2jjhy2yd4ipqasvw9frb6a2i7xnr3-vtk-6.3.0/li= b" "-DCMAKE_VERBOSE_MAKEFILE=3DON" "-DVTK_USE_EXTERNAL=3DOFF" "-DVTK_MODULE= _USE_EXTERNAL_VTK_doubleconversion=3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_eig= en=3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_expat=3DON" "-DVTK_MODULE_USE_EXTER= NAL_VTK_freetype=3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_gl2ps=3DON" "-DVTK_MO= DULE_USE_EXTERNAL_VTK_glew=3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_hdf5=3DON" = "-DVTK_MODULE_USE_EXTERNAL_VTK_jpeg=3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_js= oncpp=3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_libproj=3DON" "-DVTK_MODULE_USE_= EXTERNAL_VTK_libxml2=3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_lz4=3DON" "-DVTK_= MODULE_USE_EXTERNAL_VTK_netcdf=3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_ogg=3DO= N" "-DVTK_MODULE_USE_EXTERNAL_VTK_png=3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_= sqlite=3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_theora=3DON" "-DVTK_MODULE_USE_= EXTERNAL_VTK_tiff=3DON" "-DVTK_MODULE_USE_EXTERNAL_VTK_zlib=3DON" failed wi= th status 1 --IYGkrnnIjKN3FR9Y--