Re: [Haskell-beginners] problem cabal install'ing hmatrix
Hi Erik, Probably a dependency not mentionend in extra-libraries is missing. There is not a standard way to link -llapack. For instance, in Ubuntu/Debian we only need gsl and lapack: $ ld -lgsl -llapack ld: warning: cannot find entry symbol _start; not setting start address This means that everything is ok, but in other systems we may also need some of -l[gsl]cblas, -lgfortran, or -lf77blas, -latlas, -lgcc_s, etc. Try to find the correct libraries with $ ld -lgsl -llapack -lgslcblas or other combinations, and modify the extra-libraries field in hmatrix.cabal. In any case, I will try to add cabal flags to cover common situations. (There is also a possible issue with ghc-6.8 that must be fixed, but the library should work ok with 6.10). Alberto PS: I CC the list for reference. Erik Quaeghebeur wrote:
Alberto,
Original message:
$ cabal install hmatrix Resolving dependencies... Configuring hmatrix-0.5.1.1... Preprocessing library hmatrix-0.5.1.1... running dist/build/Numeric/GSL/Special/Internal_hsc_make failed command was: dist/build/Numeric/GSL/Special/Internal_hsc_make
dist/build/Numeric/GSL/Special/Internal.hs cabal: Error: some packages failed to install: hmatrix-0.5.1.1 failed during the building phase. The exception was: exit: ExitFailure 1
What should I do to diagnose/resolve this problem?
On Tue, 21 Apr 2009, Alberto Ruiz wrote:
Erik, do you have the same problem with a previous version?
cabal install hmatrix-0.5.0.1
Thanks for your (speedy) reply. Yes it gives the same problem:
$ cabal install hmatrix-0.5.0.1 Resolving dependencies... Configuring hmatrix-0.5.0.1... Preprocessing library hmatrix-0.5.0.1... running dist/build/Numeric/GSL/Special/Internal_hsc_make failed command was: dist/build/Numeric/GSL/Special/Internal_hsc_make
dist/build/Numeric/GSL/Special/Internal.hs cabal: Error: some packages failed to install: hmatrix-0.5.0.1 failed during the building phase. The exception was: exit: ExitFailure 1
Also, suggested by Heinrich Apfelmus:
$ cabal install hmatrix --verbose /usr/bin/ghc --numeric-version looking for package tool: ghc-pkg near compiler in /usr/bin found package tool in /usr/bin/ghc-pkg /usr/bin/ghc-pkg --version /usr/bin/ghc --supported-languages Reading installed packages... /usr/bin/ghc-pkg list Reading available packages... Resolving dependencies... selecting hmatrix-0.5.1.1 (hackage) and discarding hmatrix-0.1.0.0, 0.1.1.0, 0.2.0.0, 0.2.1.0, 0.3.0.0, 0.4.0.0 and 0.5.0.1 selecting base-3.0.1.0 (installed) selecting rts-1.0 (installed) selecting storable-complex-0.2 (installed or hackage) and discarding storable-complex-0.1 selecting haskell98-1.0.1.0 (installed or hackage) and discarding haskell98-1.0 selecting process-1.0.0.0 (installed or hackage) and discarding process-1.0.1.1 selecting unix-2.3.0.0 (installed or hackage) and discarding unix-2.0, 2.2.0.0, 2.3.1.0 and 2.3.2.0 selecting directory-1.0.0.0 (installed or hackage) and discarding directory-1.0.0.3 selecting filepath-1.1.0.0 (installed or hackage) and discarding filepath-1.0, 1.1.0.1 and 1.1.0.2 selecting array-0.1.0.0 (installed or hackage) and discarding array-0.2.0.0 selecting QuickCheck-1.2.0.0 (installed or hackage) and discarding QuickCheck-1.0, 1.1.0.0, 2.1 and 2.1.0.1 selecting random-1.0.0.0 (installed or hackage) and discarding random-1.0.0.1 selecting old-time-1.0.0.0 (installed or hackage) and discarding old-time-1.0.0.2 selecting old-locale-1.0.0.0 (installed or hackage) and discarding old-locale-1.0.0.1 selecting HUnit-1.2.0.3 (installed or hackage) and discarding HUnit-1.1, 1.2.0.0, 1.2.0.1 and 1.2.0.2 In order, the following would be installed: hmatrix-0.5.1.1 (new package) hmatrix-0.5.1.1 has already been downloaded. Extracting /home/equaeghe/.cabal/packages/hackage.haskell.org/hmatrix/0.5.1.1/hmatrix-0.5.1.1.tar.gz
to /tmp/hmatrix-0.5.1.16320... Configuring hmatrix-0.5.1.1... Flags chosen: unsafe=False, accelerate=False, mkl=False, splitbase=True Dependency HUnit -any && ==1.2.0.3: using HUnit-1.2.0.3 Dependency QuickCheck -any && ==1.2.0.0: using QuickCheck-1.2.0.0 Dependency array -any && ==0.1.0.0: using array-0.1.0.0 Dependency base >=3 && ==3.0.1.0: using base-3.0.1.0 Dependency haskell98 -any && ==1.0.1.0: using haskell98-1.0.1.0 Dependency storable-complex -any && ==0.2: using storable-complex-0.2 Using Cabal-1.6.0.3 compiled by ghc-6.8 Using compiler: ghc-6.8.2 Using install prefix: /home/equaeghe/.cabal Binaries installed in: /home/equaeghe/.cabal/bin Libraries installed in: /home/equaeghe/.cabal/lib/hmatrix-0.5.1.1/ghc-6.8.2 Private binaries installed in: /home/equaeghe/.cabal/libexec Data files installed in: /home/equaeghe/.cabal/share/hmatrix-0.5.1.1 Documentation installed in: /home/equaeghe/.cabal/share/doc/hmatrix-0.5.1.1 No alex found Using ar found on system at: /usr/bin/ar No c2hs found No cpphs found No ffihugs found Using gcc version 4.3.2 found on system at: /usr/bin/gcc Using ghc version 6.8.2 found on system at: /usr/bin/ghc Using ghc-pkg version 6.8.2 found on system at: /usr/bin/ghc-pkg No greencard found No haddock found No happy found No hmake found Using hsc2hs version 0.66 found on system at: /usr/bin/hsc2hs No hscolour found No hugs found No jhc found Using ld found on system at: /usr/bin/ld No nhc98 found Using pkg-config version 0.23 found on system at: /usr/bin/pkg-config Using ranlib found on system at: /usr/bin/ranlib Using strip found on system at: /usr/bin/strip Using tar found on system at: /bin/tar /usr/bin/gcc /tmp/6320.c -o /tmp/6320 -D__GLASGOW_HASKELL__=608 -I. -DFINIT -I/usr/lib64/ghc-6.8.2/lib/process-1.0.0.0/include -I/usr/lib64/ghc-6.8.2/lib/unix-2.3.0.0/include -I/usr/lib64/ghc-6.8.2/lib/directory-1.0.0.0/include -I/usr/lib64/ghc-6.8.2/lib/old-time-1.0.0.0/include -I/usr/lib64/ghc-6.8.2/lib/base-3.0.1.0/include -I/usr/lib64/ghc-6.8.2/include -lgsl -llapack Creating dist/build (and its parents) Creating dist/build/autogen (and its parents) Preprocessing library hmatrix-0.5.1.1... Creating dist/build/Numeric/GSL/Special (and its parents) /usr/bin/hsc2hs --cc=/usr/bin/gcc --ld=/usr/bin/gcc --cflag=-D__GLASGOW_HASKELL__=608 --cflag=-DFINIT --lflag=-lgsl --lflag=-llapack --cflag=-I/usr/lib64/ghc-6.8.2/lib/process-1.0.0.0/include --cflag=-I/usr/lib64/ghc-6.8.2/lib/unix-2.3.0.0/include --cflag=-I/usr/lib64/ghc-6.8.2/lib/directory-1.0.0.0/include --cflag=-I/usr/lib64/ghc-6.8.2/lib/old-time-1.0.0.0/include --cflag=-I/usr/lib64/ghc-6.8.2/lib/base-3.0.1.0/include --cflag=-I/usr/lib64/ghc-6.8.2/include --lflag=-L/home/equaeghe/.cabal/lib/storable-complex-0.2/ghc-6.8.2 --lflag=-L/usr/lib64/ghc-6.8.2/lib/haskell98-1.0.1.0 --lflag=-L/usr/lib64/ghc-6.8.2/lib/process-1.0.0.0 --lflag=-L/usr/lib64/ghc-6.8.2/lib/unix-2.3.0.0 --lflag=-lutil --lflag=-ldl --lflag=-L/usr/lib64/ghc-6.8.2/lib/directory-1.0.0.0 --lflag=-L/usr/lib64/ghc-6.8.2/lib/filepath-1.1.0.0 --lflag=-L/usr/lib64/ghc-6.8.2/lib/array-0.1.0.0 --lflag=-L/home/equaeghe/.cabal/lib/QuickCheck-1.2.0.0/ghc-6.8.2 --lflag=-L/usr/lib64/ghc-6.8.2/lib/random-1.0.0.0 --lflag=-L/usr/lib64/ghc-6.8.2/lib/old-time-1.0.0.0 --lflag=-L/usr/lib64/ghc-6.8.2/lib/old-locale-1.0.0.0 --lflag=-L/home/equaeghe/.cabal/lib/HUnit-1.2.0.3/ghc-6.8.2 --lflag=-L/usr/lib64/ghc-6.8.2/lib/base-3.0.1.0 --lflag=-L/usr/lib64/ghc-6.8.2 --lflag=-lm --lflag=-lgmp --lflag=-ldl --lflag=-lrt -o dist/build/Numeric/GSL/Special/Internal.hs lib/Numeric/GSL/Special/Internal.hsc running dist/build/Numeric/GSL/Special/Internal_hsc_make failed command was: dist/build/Numeric/GSL/Special/Internal_hsc_make
dist/build/Numeric/GSL/Special/Internal.hs cabal: Error: some packages failed to install: hmatrix-0.5.1.1 failed during the building phase. The exception was: exit: ExitFailure 1
I still have to test the version in the Gentoo Haskell overlay. That should work (but then I wouldn't use cabal install).
Regards,
Erik
Original message:
$ cabal install hmatrix Resolving dependencies... Configuring hmatrix-0.5.1.1... Preprocessing library hmatrix-0.5.1.1... running dist/build/Numeric/GSL/Special/Internal_hsc_make failed command was: dist/build/Numeric/GSL/Special/Internal_hsc_make
dist/build/Numeric/GSL/Special/Internal.hs cabal: Error: some packages failed to install: hmatrix-0.5.1.1 failed during the building phase. The exception was: exit: ExitFailure 1
What should I do to diagnose/resolve this problem?
On Thu, 23 Apr 2009, Alberto Ruiz wrote:
Probably a dependency not mentionend in extra-libraries is missing. There is not a standard way to link -llapack. For instance, in Ubuntu/Debian we only need gsl and lapack:
$ ld -lgsl -llapack ld: warning: cannot find entry symbol _start; not setting start address
This means that everything is ok, but in other systems we may also need some of -l[gsl]cblas, -lgfortran, or -lf77blas, -latlas, -lgcc_s, etc.
Try to find the correct libraries with
$ ld -lgsl -llapack -lgslcblas
# ld -lgsl -llapack -lgslcblas ld: warning: cannot find entry symbol _start; not setting start address
or other combinations, and modify the extra-libraries field in hmatrix.cabal. In any case, I will try to add cabal flags to cover common situations. (There is also a possible issue with ghc-6.8 that must be fixed, but the library should work ok with 6.10).
# ghc --version The Glorious Glasgow Haskell Compilation System, version 6.8.2 It seems we still don't know the cause; any more things I can do to diagnose? I'll also investigate the possibilities of resolving this issue by using the gentoo haskell overlay or non-stable versions of ghc (6.10) in Gentoo's repository. Erik
Erik, if you get
# ld -lgsl -llapack -lgslcblas ld: warning: cannot find entry symbol _start; not setting start address
perhaps you only need to uncomment line 141 in hmatrix.cabal and try "cabal install" in that folder. This is not the default because we prefer to link with a possibly optimized cblas. Clearly hmatrix requires a previous configure step. Alberto Erik Quaeghebeur wrote:
Original message:
> $ cabal install hmatrix Resolving dependencies... Configuring hmatrix-0.5.1.1... Preprocessing library hmatrix-0.5.1.1... running dist/build/Numeric/GSL/Special/Internal_hsc_make failed command was: dist/build/Numeric/GSL/Special/Internal_hsc_make dist/build/Numeric/GSL/Special/Internal.hs cabal: Error: some packages failed to install: hmatrix-0.5.1.1 failed during the building phase. The exception was: exit: ExitFailure 1 > What should I do to diagnose/resolve this problem?
On Thu, 23 Apr 2009, Alberto Ruiz wrote:
Probably a dependency not mentionend in extra-libraries is missing. There is not a standard way to link -llapack. For instance, in Ubuntu/Debian we only need gsl and lapack:
$ ld -lgsl -llapack ld: warning: cannot find entry symbol _start; not setting start address
This means that everything is ok, but in other systems we may also need some of -l[gsl]cblas, -lgfortran, or -lf77blas, -latlas, -lgcc_s, etc.
Try to find the correct libraries with
$ ld -lgsl -llapack -lgslcblas
# ld -lgsl -llapack -lgslcblas ld: warning: cannot find entry symbol _start; not setting start address
or other combinations, and modify the extra-libraries field in hmatrix.cabal. In any case, I will try to add cabal flags to cover common situations. (There is also a possible issue with ghc-6.8 that must be fixed, but the library should work ok with 6.10).
# ghc --version The Glorious Glasgow Haskell Compilation System, version 6.8.2
It seems we still don't know the cause; any more things I can do to diagnose?
I'll also investigate the possibilities of resolving this issue by using the gentoo haskell overlay or non-stable versions of ghc (6.10) in Gentoo's repository.
Erik
On Fri, 24 Apr 2009, Alberto Ruiz wrote:
Erik, if you get
# ld -lgsl -llapack -lgslcblas ld: warning: cannot find entry symbol _start; not setting start address
perhaps you only need to uncomment line 141 in hmatrix.cabal and try "cabal install" in that folder.
This is not the default because we prefer to link with a possibly optimized cblas. Clearly hmatrix requires a previous configure step.
I've managed to get things working using the gentoo haskell overlay! I had an optimized blas installed (atlas), but perhaps it wasn't automatically detected? Anyhow, it works now; there is no need to get deeper into the distribution-specific behavior. I can focus on coding. Erik
participants (2)
-
Alberto Ruiz -
Erik Quaeghebeur