Re: [Fink-users] Failed: phase compiling: atlas-3.10.1-1 failed
On Wed, Apr 10, 2013 at 08:51:32AM +0200, Dominique Dhumieres wrote: Updating to atlas-3.10.1-1 failed on Package manager version: 0.34.7 Distribution version: selfupdate-rsync Tue Apr 9 23:13:12 2013, 10.5, powerpc Trees: local/main stable/main stable/crypto unstable/main unstable/crypto Xcode.app: 3.1.4 Xcode command-line tools: 3.1.4 atlas-3.10.1-1 is set to build with only one job. with BEGIN STAGE 2-2-5: GEMV TUNE at 03:53 make -f Makefile INSTALL_LOG/sMVNK.sum pre=s 21 | ./xatlas_tee INSTALL_LOG/sMVNTUNE.LOG make[1]: Leaving directory `/sw/src/fink.build/atlas-3.10.1-1/darwin_bld' ### execution of /tmp/fink.xL5c7 failed, exit code 2 ### execution of /tmp/fink.wCntN failed, exit code 2 Removing runtime build-lock... Removing build-lock package... /sw/bin/dpkg-lockwait -r fink-buildlock-atlas-3.10.1-1 (Reading database ... 575762 files and directories currently installed.) Removing fink-buildlock-atlas-3.10.1-1 ... Failed: phase compiling: atlas-3.10.1-1 failed TIA Dominique Dominique, Can you post INSTALL_LOG/sMVNTUNE.LOG? I suspect this will reveal that passing -mcpu=7400 -mtune=7400 for powerpc on mflags solves the build problem. Jack -- Precog is a next-generation analytics platform capable of advanced analytics on semi-structured data. The platform includes APIs for building apps and a phenomenal toolset for data science. Developers can use our toolset for easy data analysis visualization. Get a free account! http://www2.precog.com/precogplatform/slashdotnewsletter ___ Fink-users mailing list Fink-users@lists.sourceforge.net List archive: http://news.gmane.org/gmane.os.macosx.fink.user Subscription management: https://lists.sourceforge.net/lists/listinfo/fink-users
Re: [Fink-users] Failed: phase compiling: atlas-3.10.1-1 failed
Can you post INSTALL_LOG/sMVNTUNE.LOG? I add it at the end of this mail. Apparently the relevant error is /sw/src/fink.build/atlas-3.10.1-1/darwin_bld/bin/ATLrun.sh: line 4: 63889 Segmentation fault $atldir/$* I suspect this will reveal that passing -mcpu=7400 -mtune=7400 on mflags solves the build problem. Does this apply also for G5? Dominique *** *** *** * BEGAN ATLAS3.10.1 INSTALL OF SECTION 2-2-7 ON 04/10/2013 AT 23:16 * *** *** *** make[2]: Entering directory `/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/bin' cd /sw/src/fink.build/atlas-3.10.1-1/darwin_bld/tune/blas/gemv ; make res/sMVNK.sum pre=s make[3]: Entering directory `/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/tune/blas/gemv' ./xmvnksearch -p s Read in L1 Cache size as = 32KB. ERROR 512, LINE 318 OF /sw/src/fink.build/atlas-3.10.1-1/darwin_bld/../ATLAS//include/atlas_mvtesttime.h SYSTEM CALL FAILED: make smvnktime M=870 N=8 lda=875 mvnrout=smvn_C.c iflag=24843 MVNKdir=EXTDIR sMVFLAGS=-force_cpusubtype_ALL -fPIC -fomit-frame-pointer -O3 -maltivec -mabi=altivec -force_cpusubtype_ALL -m32 -fPIC align=-Fa 4 -Fa -8 -Fx 4 -Fx -8 -Fy 4 -Fy -8 flushKB=0 tflags=-f res/smv90N_870x8_875-0_32x8_0_a0x0x0_24843 -# 8 -F 3902 mu=32 nu=8 /var/tmp/tmp.1.FL1FjM 21 OUTPUT OF system(): make[4]: Entering directory `/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/tune/blas/gemv' rm -f ATL_smvnk.c ATL_sgemvN.o xsmvnktime cp -f EXTDIR/smvn_C.c ATL_smvnk.c /sw/src/fink.build/atlas-3.10.1-1/gcc -c -DL2SIZE=4194304 -I/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/include -I/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/../ATLAS//include -I/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/../ATLAS//include/contrib -DAdd_ -DF77_INTEGER=int -DStringSunStyle -DATL_OS_OSX -DATL_ARCH_PPCG4 -DATL_CPUMHZ=1800 -DATL_GAS_PPC -m32 -DATL_DYLIBS -DATL_FULL_LAPACK -force_cpusubtype_ALL -fPIC -fomit-frame-pointer -O3 -maltivec -mabi=altivec -force_cpusubtype_ALL -m32 -fPIC -I/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/tune/blas/gemv -o ATL_smvnk.o \ -DSREAL ATL_smvnk.c /sw/src/fink.build/atlas-3.10.1-1/gcc -DL2SIZE=4194304 -I/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/include -I/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/../ATLAS//include -I/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/../ATLAS//include/contrib -DAdd_ -DF77_INTEGER=int -DStringSunStyle -DATL_OS_OSX -DATL_ARCH_PPCG4 -DATL_CPUMHZ=1800 -DATL_GAS_PPC -m32 -DATL_DYLIBS -DATL_FULL_LAPACK -fPIC -fomit-frame-pointer -O3 -maltivec -mabi=altivec -force_cpusubtype_ALL -m32 -fPIC -o xsmvnktime smvktimeN.o \ ATL_smvnk.o \ /sw/src/fink.build/atlas-3.10.1-1/darwin_bld/lib/libtstatlas.a /sw/src/fink.build/atlas-3.10.1-1/darwin_bld/lib/libatlas.a /sw/src/fink.build/atlas-3.10.1-1/darwin_bld/bin/ATLrun.sh /sw/src/fink.build/atlas-3.10.1-1/darwin_bld/tune/blas/gemv xsmvnktime -m 870 -n 8 -l 875 \ -C 0 -Fa 4 -Fa -8 -Fx 4 -Fx -8 -Fy 4 -Fy -8 -f res/smv90N_870x8_875-0_32x8_0_a0x0x0_24843 -# 8 -F 3902 /sw/src/fink.build/atlas-3.10.1-1/darwin_bld/bin/ATLrun.sh: line 4: 63889 Segmentation fault $atldir/$* make[4]: *** [smvnktime] Error 139 make[4]: Leaving directory `/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/tune/blas/gemv' Cases read in: ID=1 ROUT='ATL_gemvN_axpy.c' AUTH='R. Clint Whaley' TA='N' \ rankR=0 CacheElts=0 SSE=0 alignA=0 alignY=0 alignX=0 minM=0 minN=0 NU=16 \ MU=1 LDAMUL=0 PFTUNABLE=0 ALIGNX2A=0 ADDCFLAGS=0 GEMMBASED=0 AXPYBASED=1 \ ALLALIGNXY=0 LDYTOP=0 FNU=0 X87=0 ID=2 ROUT='ATL_sgemvN_8x4_sse.c' AUTH='R. Clint Whaley' TA='N' \ rankR=0 CacheElts=0 SSE=1 alignA=0 alignY=16 alignX=0 minM=0 minN=0 \ NU=4 MU=8 LDAMUL=16 PFTUNABLE=0 ALIGNX2A=1 ADDCFLAGS=0 GEMMBASED=0 AXPYBASED=1 \ ALLALIGNXY=0 LDYTOP=0 FNU=0 X87=0 ID=3 ROUT='ATL_gemvN_v6x8_vsx.c' AUTH='IBM' TA='N' \ rankR=0 CacheElts=0 SSE=0 alignA=0 alignY=0 alignX=0 minM=0 minN=0 NU=8 \ MU=24 LDAMUL=0 PFTUNABLE=0 ALIGNX2A=0 ADDCFLAGS=0 GEMMBASED=0 AXPYBASED=1 \ ALLALIGNXY=0 LDYTOP=0 FNU=0 X87=0 CFLAGS='-O3 -mvsx' COMP='gcc' BEGIN BASIC KERNEL TESTS: Kernel ATL_gemvN_axpy.c(1) passes basic test NUKING bad kernel ATL_gemvN_v6x8_vsx.c(3), MU=24, NU=8 DONE BASIC KERNEL TESTS: Surviving cases: ID=1 ROUT='ATL_gemvN_axpy.c' AUTH='R. Clint Whaley' TA='N' \ rankR=0 CacheElts=0 SSE=0 alignA=0 alignY=0 alignX=0 minM=0 minN=0 NU=16 \ MU=1 LDAMUL=0 PFTUNABLE=0 ALIGNX2A=0 ADDCFLAGS=0 GEMMBASED=0 AXPYBASED=1 \ ALLALIGNXY=0 LDYTOP=0 FNU=0 X87=0
Re: [Fink-users] Failed: phase compiling: atlas-3.10.1-1 failed
On Mon, Apr 15, 2013 at 03:10:07PM +0200, Dominique Dhumieres wrote: Can you post INSTALL_LOG/sMVNTUNE.LOG? I add it at the end of this mail. Apparently the relevant error is /sw/src/fink.build/atlas-3.10.1-1/darwin_bld/bin/ATLrun.sh: line 4: 63889 Segmentation fault $atldir/$* I suspect this will reveal that passing -mcpu=7400 -mtune=7400 on mflags solves the build problem. Does this apply also for G5? The change I checked in will be used for both G4 and G5 (ala MacPorts). If there is enough demand, I would change that to use sysctl to only add '-mtune=7400 -mcpu=7400' on build machines with G4's. The fact that the failure is a a tune related log suggests that this may well fix the issue on G4's. Jack ps Note that upstream apparently hasn't tested on PowerPC Macs for awhile as they don't have the expected arch tgz available and the misnamed legacy ones aren't properly configured for the newer atlas releases to build. The current build on PowerPC Macs relies on a full manual determination of the proper configuration settings for the build (with the guidance of passing -A4). Dominique *** *** *** * BEGAN ATLAS3.10.1 INSTALL OF SECTION 2-2-7 ON 04/10/2013 AT 23:16 * *** *** *** make[2]: Entering directory `/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/bin' cd /sw/src/fink.build/atlas-3.10.1-1/darwin_bld/tune/blas/gemv ; make res/sMVNK.sum pre=s make[3]: Entering directory `/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/tune/blas/gemv' ./xmvnksearch -p s Read in L1 Cache size as = 32KB. ERROR 512, LINE 318 OF /sw/src/fink.build/atlas-3.10.1-1/darwin_bld/../ATLAS//include/atlas_mvtesttime.h SYSTEM CALL FAILED: make smvnktime M=870 N=8 lda=875 mvnrout=smvn_C.c iflag=24843 MVNKdir=EXTDIR sMVFLAGS=-force_cpusubtype_ALL -fPIC -fomit-frame-pointer -O3 -maltivec -mabi=altivec -force_cpusubtype_ALL -m32 -fPIC align=-Fa 4 -Fa -8 -Fx 4 -Fx -8 -Fy 4 -Fy -8 flushKB=0 tflags=-f res/smv90N_870x8_875-0_32x8_0_a0x0x0_24843 -# 8 -F 3902 mu=32 nu=8 /var/tmp/tmp.1.FL1FjM 21 OUTPUT OF system(): make[4]: Entering directory `/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/tune/blas/gemv' rm -f ATL_smvnk.c ATL_sgemvN.o xsmvnktime cp -f EXTDIR/smvn_C.c ATL_smvnk.c /sw/src/fink.build/atlas-3.10.1-1/gcc -c -DL2SIZE=4194304 -I/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/include -I/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/../ATLAS//include -I/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/../ATLAS//include/contrib -DAdd_ -DF77_INTEGER=int -DStringSunStyle -DATL_OS_OSX -DATL_ARCH_PPCG4 -DATL_CPUMHZ=1800 -DATL_GAS_PPC -m32 -DATL_DYLIBS -DATL_FULL_LAPACK -force_cpusubtype_ALL -fPIC -fomit-frame-pointer -O3 -maltivec -mabi=altivec -force_cpusubtype_ALL -m32 -fPIC -I/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/tune/blas/gemv -o ATL_smvnk.o \ -DSREAL ATL_smvnk.c /sw/src/fink.build/atlas-3.10.1-1/gcc -DL2SIZE=4194304 -I/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/include -I/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/../ATLAS//include -I/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/../ATLAS//include/contrib -DAdd_ -DF77_INTEGER=int -DStringSunStyle -DATL_OS_OSX -DATL_ARCH_PPCG4 -DATL_CPUMHZ=1800 -DATL_GAS_PPC -m32 -DATL_DYLIBS -DATL_FULL_LAPACK -fPIC -fomit-frame-pointer -O3 -maltivec -mabi=altivec -force_cpusubtype_ALL -m32 -fPIC -o xsmvnktime smvktimeN.o \ ATL_smvnk.o \ /sw/src/fink.build/atlas-3.10.1-1/darwin_bld/lib/libtstatlas.a /sw/src/fink.build/atlas-3.10.1-1/darwin_bld/lib/libatlas.a /sw/src/fink.build/atlas-3.10.1-1/darwin_bld/bin/ATLrun.sh /sw/src/fink.build/atlas-3.10.1-1/darwin_bld/tune/blas/gemv xsmvnktime -m 870 -n 8 -l 875 \ -C 0 -Fa 4 -Fa -8 -Fx 4 -Fx -8 -Fy 4 -Fy -8 -f res/smv90N_870x8_875-0_32x8_0_a0x0x0_24843 -# 8 -F 3902 /sw/src/fink.build/atlas-3.10.1-1/darwin_bld/bin/ATLrun.sh: line 4: 63889 Segmentation fault $atldir/$* make[4]: *** [smvnktime] Error 139 make[4]: Leaving directory `/sw/src/fink.build/atlas-3.10.1-1/darwin_bld/tune/blas/gemv' Cases read in: ID=1 ROUT='ATL_gemvN_axpy.c' AUTH='R. Clint Whaley' TA='N' \ rankR=0 CacheElts=0 SSE=0 alignA=0 alignY=0 alignX=0 minM=0 minN=0 NU=16 \ MU=1 LDAMUL=0 PFTUNABLE=0 ALIGNX2A=0 ADDCFLAGS=0 GEMMBASED=0 AXPYBASED=1 \ ALLALIGNXY=0 LDYTOP=0 FNU=0 X87=0 ID=2 ROUT='ATL_sgemvN_8x4_sse.c' AUTH='R. Clint Whaley' TA='N' \ rankR=0 CacheElts=0 SSE=1 alignA=0 alignY=16
[Fink-users] library conflict when using latex
I'm experiencing a library conflict when running latex (or pdflatex) installed from texlive on my laptop running Mountain Lion (10.8.3). I have recently done a clean install of fink with the most up-to-date Xcode. latex dyld: Library not loaded: /sw/lib/libxml2.2.dylib Referenced from: /sw/lib/libpoppler.4.dylib Reason: Incompatible library version: libpoppler.4.dylib requires version 11.0.0 or later, but libxml2.2.dylib provides version 10.0.0 Trace/BPT trap Apparently there is a problem with the DYLD_LIBRARY_PATH, since if I temporarily take the drastic measure of unsetting it then latex works fine w/o any conflict. I'm not sure why this is happening. Here's the otool output: otool -L /sw/bin/latex /sw/bin/latex: /sw/lib/libpng15.15.dylib (compatibility version 26.0.0, current version 26.0.0) /usr/lib/libz.1.dylib (compatibility version 1.0.0, current version 1.2.5) /sw/lib/libpoppler.4.dylib (compatibility version 5.0.0, current version 5.0.0) /sw/lib/libkpathsea.6.dylib (compatibility version 7.0.0, current version 7.1.0) /usr/lib/libstdc++.6.dylib (compatibility version 7.0.0, current version 56.0.0) /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version 169.3.0) Note that I do not have this problems on an iMac using a slightly older Xcode. Thanks for any thoughts on how to resolve this gracefully. -- Precog is a next-generation analytics platform capable of advanced analytics on semi-structured data. The platform includes APIs for building apps and a phenomenal toolset for data science. Developers can use our toolset for easy data analysis visualization. Get a free account! http://www2.precog.com/precogplatform/slashdotnewsletter ___ Fink-users mailing list Fink-users@lists.sourceforge.net List archive: http://news.gmane.org/gmane.os.macosx.fink.user Subscription management: https://lists.sourceforge.net/lists/listinfo/fink-users
Re: [Fink-users] library conflict when using latex
On 4/15/13 9:29 AM, I'm Hungry wrote: I'm experiencing a library conflict when running latex (or pdflatex) installed from texlive on my laptop running Mountain Lion (10.8.3). I have recently done a clean install of fink with the most up-to-date Xcode. latex dyld: Library not loaded: /sw/lib/libxml2.2.dylib Referenced from: /sw/lib/libpoppler.4.dylib Reason: Incompatible library version: libpoppler.4.dylib requires version 11.0.0 or later, but libxml2.2.dylib provides version 10.0.0 Trace/BPT trap Apparently there is a problem with the DYLD_LIBRARY_PATH, since if I temporarily take the drastic measure of unsetting it then latex works fine w/o any conflict. I'm not sure why this is happening. Here's the otool output: Hard to say, since you didn't post what your DYLD_LIBRARY_PATH is. And why are you setting DYLD_LIBRARY_PATH, anyway? That is precisely what is breaking your latex. otool -L /sw/bin/latex /sw/bin/latex: /sw/lib/libpng15.15.dylib (compatibility version 26.0.0, current version 26.0.0) /usr/lib/libz.1.dylib (compatibility version 1.0.0, current version 1.2.5) /sw/lib/libpoppler.4.dylib (compatibility version 5.0.0, current version 5.0.0) /sw/lib/libkpathsea.6.dylib (compatibility version 7.0.0, current version 7.1.0) /usr/lib/libstdc++.6.dylib (compatibility version 7.0.0, current version 56.0.0) /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version 169.3.0) Note that I do not have this problems on an iMac using a slightly older Xcode. Thanks for any thoughts on how to resolve this gracefully. DYLD_LIBRARY_PATH *completely derails* the normal lookup procedure, and thus /sw/lib/libpoppler.4.dylib is trying to use an older, incompatible libxml2.2.dylib from outside of Fink. If you're trying to get functionality like LD_LIBRARY_PATH in Linux, DYLD_FALLBACK_LIBRARY_PATH in OS X has closer behavior. -- Alexander Hansen, Ph.D. Fink User Liaison My package updates: http://finkakh.wordpress.com/ -- Precog is a next-generation analytics platform capable of advanced analytics on semi-structured data. The platform includes APIs for building apps and a phenomenal toolset for data science. Developers can use our toolset for easy data analysis visualization. Get a free account! http://www2.precog.com/precogplatform/slashdotnewsletter ___ Fink-users mailing list Fink-users@lists.sourceforge.net List archive: http://news.gmane.org/gmane.os.macosx.fink.user Subscription management: https://lists.sourceforge.net/lists/listinfo/fink-users
Re: [Fink-users] library conflict when using latex
Am 15.04.2013 um 18:29 schrieb I'm Hungry: Apparently there is a problem with the DYLD_LIBRARY_PATH, since if I temporarily take the drastic measure of unsetting it then latex works fine w/o any conflict. In normal live there is no need to have DYLD_LIBRARY_PATH set. -- Greetings Pete _oo o o _ \\_/\_, \\_ \\_/\_, (*)/(*) (*) (*) (*) `-(*) -- Precog is a next-generation analytics platform capable of advanced analytics on semi-structured data. The platform includes APIs for building apps and a phenomenal toolset for data science. Developers can use our toolset for easy data analysis visualization. Get a free account! http://www2.precog.com/precogplatform/slashdotnewsletter ___ Fink-users mailing list Fink-users@lists.sourceforge.net List archive: http://news.gmane.org/gmane.os.macosx.fink.user Subscription management: https://lists.sourceforge.net/lists/listinfo/fink-users
