#15834 closed defect (fixed)
py25-scipy-0.6.0 upgrade fails to build
| Reported by: | ralph@… | Owned by: | skymoo (Adam Mercer) |
|---|---|---|---|
| Priority: | Normal | Milestone: | |
| Component: | ports | Version: | 1.6.0 |
| Keywords: | py25-scipy | Cc: | |
| Port: |
Description
---> Building py25-scipy with target build Error: Target org.macports.build returned: shell command " cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_python_py25-scipy/work/scipy-0.6.0" && /opt/local/bin/python2.5 setup.py config_fc --fcompiler gnu95 --f77exec /opt/local/bin/gfortran-mp-4.3 --f90exec /opt/local/bin/gfortran-mp-4.3 build " returned error 1 Command output: Constructing wrapper function "dgmresrevcom"... x,iter,resid,info,ndx1,ndx2,sclr1,sclr2,ijob = dgmresrevcom(b,x,restrt,work,work2,iter,resid,info,ndx1,ndx2,ijob) Constructing wrapper function "cgmresrevcom"... x,iter,resid,info,ndx1,ndx2,sclr1,sclr2,ijob = cgmresrevcom(b,x,restrt,work,work2,iter,resid,info,ndx1,ndx2,ijob) Constructing wrapper function "zgmresrevcom"... x,iter,resid,info,ndx1,ndx2,sclr1,sclr2,ijob = zgmresrevcom(b,x,restrt,work,work2,iter,resid,info,ndx1,ndx2,ijob) Constructing wrapper function "sstoptest2"... bnrm2,resid,info = sstoptest2(r,b,bnrm2,tol,info) Constructing wrapper function "dstoptest2"... bnrm2,resid,info = dstoptest2(r,b,bnrm2,tol,info) Constructing wrapper function "cstoptest2"... bnrm2,resid,info = cstoptest2(r,b,bnrm2,tol,info) Constructing wrapper function "zstoptest2"... bnrm2,resid,info = zstoptest2(r,b,bnrm2,tol,info) Wrote C/API module "_iterative" to file "build/src.macosx-10.3-i386-2.5/build/src.macosx-10.3-i386-2.5/scipy/linalg/iterative/_iterativemodule.c" adding 'build/src.macosx-10.3-i386-2.5/fortranobject.c' to sources. adding 'build/src.macosx-10.3-i386-2.5' to include_dirs. building extension "scipy.linsolve._zsuperlu" sources building extension "scipy.linsolve._dsuperlu" sources building extension "scipy.linsolve._csuperlu" sources building extension "scipy.linsolve._ssuperlu" sources building extension "scipy.linsolve.umfpack.__umfpack" sources creating build/src.macosx-10.3-i386-2.5/scipy/linsolve creating build/src.macosx-10.3-i386-2.5/scipy/linsolve/umfpack adding 'scipy/linsolve/umfpack/umfpack.i' to sources. swig: scipy/linsolve/umfpack/umfpack.i swig -python -o build/src.macosx-10.3-i386-2.5/scipy/linsolve/umfpack/_umfpack_wrap.c -outdir build/src.macosx-10.3-i386-2.5/scipy/linsolve/umfpack scipy/linsolve/umfpack/umfpack.i :3: Error: Unable to find 'python.swg' scipy/linsolve/umfpack/umfpack.i:233: Error: Unable to find 'typemaps.i' error: command 'swig' failed with exit status 1 Error: Unable to upgrade port: 1
Change History (20)
comment:1 Changed 16 years ago by skymoo (Adam Mercer)
| Milestone: | → Port Bugs |
|---|---|
| Owner: | changed from macports-tickets@… to ram@… |
| Status: | new → assigned |
comment:2 Changed 16 years ago by skymoo (Adam Mercer)
comment:4 Changed 16 years ago by mf2k (Frank Schima)
I see the same problem here with Mac OS X 10.5.4 on a (Intel) Mac Pro with Xcode 3.0.
comment:5 Changed 16 years ago by skymoo (Adam Mercer)
strange, as on the same platform it works for me.
Is this problem only on upgrade or do you get it on a fresh build as well?
comment:6 Changed 16 years ago by henkpoley@…
Same problem. Upgrade on OS X.5.4, GCC: i686-apple-darwin9-gcc-4.0.1
Just ran sudo port clean -f --all py25-scipy, let's see if that helps.
comment:7 Changed 16 years ago by henkpoley@…
Console output of: clean, force-clean, upgrade, re-upgrade ::
noname:~ henk$ sudo port clean --all py25-scipy ---> Cleaning py25-scipy Warning: Distfiles directory '/opt/local/var/macports/distfiles/python' may contain distfiles needed for other ports, use the -f flag to force removal noname:~ henk$ sudo port clean -f --all py25-scipy ---> Cleaning py25-scipy noname:~ henk$ sudo port upgrade py25-scipy ---> Fetching py25-scipy ---> Attempting to fetch scipy-0.6.0.tar.gz from http://downloads.sourceforge.net/scipy ---> Verifying checksum(s) for py25-scipy ---> Extracting py25-scipy ---> Applying patches to py25-scipy ---> Configuring py25-scipy ---> Building py25-scipy with target build Error: Target org.macports.build returned: shell command " cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_python_py25-scipy/work/scipy-0.6.0" && /opt/local/bin/python2.5 setup.py config_fc --fcompiler gnu95 --f77exec /opt/local/bin/gfortran-mp-4.3 --f90exec /opt/local/bin/gfortran-mp-4.3 build " returned error 1 Command output: Constructing wrapper function "dgmresrevcom"... x,iter,resid,info,ndx1,ndx2,sclr1,sclr2,ijob = dgmresrevcom(b,x,restrt,work,work2,iter,resid,info,ndx1,ndx2,ijob) Constructing wrapper function "cgmresrevcom"... x,iter,resid,info,ndx1,ndx2,sclr1,sclr2,ijob = cgmresrevcom(b,x,restrt,work,work2,iter,resid,info,ndx1,ndx2,ijob) Constructing wrapper function "zgmresrevcom"... x,iter,resid,info,ndx1,ndx2,sclr1,sclr2,ijob = zgmresrevcom(b,x,restrt,work,work2,iter,resid,info,ndx1,ndx2,ijob) Constructing wrapper function "sstoptest2"... bnrm2,resid,info = sstoptest2(r,b,bnrm2,tol,info) Constructing wrapper function "dstoptest2"... bnrm2,resid,info = dstoptest2(r,b,bnrm2,tol,info) Constructing wrapper function "cstoptest2"... bnrm2,resid,info = cstoptest2(r,b,bnrm2,tol,info) Constructing wrapper function "zstoptest2"... bnrm2,resid,info = zstoptest2(r,b,bnrm2,tol,info) Wrote C/API module "_iterative" to file "build/src.macosx-10.3-i386-2.5/build/src.macosx-10.3-i386-2.5/scipy/linalg/iterative/_iterativemodule.c" adding 'build/src.macosx-10.3-i386-2.5/fortranobject.c' to sources. adding 'build/src.macosx-10.3-i386-2.5' to include_dirs. building extension "scipy.linsolve._zsuperlu" sources building extension "scipy.linsolve._dsuperlu" sources building extension "scipy.linsolve._csuperlu" sources building extension "scipy.linsolve._ssuperlu" sources building extension "scipy.linsolve.umfpack.__umfpack" sources creating build/src.macosx-10.3-i386-2.5/scipy/linsolve creating build/src.macosx-10.3-i386-2.5/scipy/linsolve/umfpack adding 'scipy/linsolve/umfpack/umfpack.i' to sources. swig: scipy/linsolve/umfpack/umfpack.i swig -python -o build/src.macosx-10.3-i386-2.5/scipy/linsolve/umfpack/_umfpack_wrap.c -outdir build/src.macosx-10.3-i386-2.5/scipy/linsolve/umfpack scipy/linsolve/umfpack/umfpack.i :3: Error: Unable to find 'python.swg' scipy/linsolve/umfpack/umfpack.i:233: Error: Unable to find 'typemaps.i' error: command 'swig' failed with exit status 1 Error: Unable to upgrade port: 1 noname:~ henk$ sudo port upgrade py25-scipy ---> Building py25-scipy with target build Error: Target org.macports.build returned: shell command " cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_python_py25-scipy/work/scipy-0.6.0" && /opt/local/bin/python2.5 setup.py config_fc --fcompiler gnu95 --f77exec /opt/local/bin/gfortran-mp-4.3 --f90exec /opt/local/bin/gfortran-mp-4.3 build " returned error 1 Command output: adding 'build/src.macosx-10.3-i386-2.5/build/src.macosx-10.3-i386-2.5/scipy/linalg/flapack-f2pywrappers.f' to sources. building extension "scipy.linalg.clapack" sources adding 'build/src.macosx-10.3-i386-2.5/scipy/linalg/clapack.pyf' to sources. f2py options: [] adding 'build/src.macosx-10.3-i386-2.5/fortranobject.c' to sources. adding 'build/src.macosx-10.3-i386-2.5' to include_dirs. building extension "scipy.linalg._flinalg" sources f2py options: [] adding 'build/src.macosx-10.3-i386-2.5/fortranobject.c' to sources. adding 'build/src.macosx-10.3-i386-2.5' to include_dirs. building extension "scipy.linalg.calc_lwork" sources f2py options: [] adding 'build/src.macosx-10.3-i386-2.5/fortranobject.c' to sources. adding 'build/src.macosx-10.3-i386-2.5' to include_dirs. building extension "scipy.linalg.atlas_version" sources building extension "scipy.linalg._iterative" sources f2py options: [] adding 'build/src.macosx-10.3-i386-2.5/fortranobject.c' to sources. adding 'build/src.macosx-10.3-i386-2.5' to include_dirs. building extension "scipy.linsolve._zsuperlu" sources building extension "scipy.linsolve._dsuperlu" sources building extension "scipy.linsolve._csuperlu" sources building extension "scipy.linsolve._ssuperlu" sources building extension "scipy.linsolve.umfpack.__umfpack" sources adding 'scipy/linsolve/umfpack/umfpack.i' to sources. swig: scipy/linsolve/umfpack/umfpack.i swig -python -o build/src.macosx-10.3-i386-2.5/scipy/linsolve/umfpack/_umfpack_wrap.c -outdir build/src.macosx-10.3-i386-2.5/scipy/linsolve/umfpack scipy/linsolve/umfpack/umfpack.i :3: Error: Unable to find 'python.swg' scipy/linsolve/umfpack/umfpack.i:233: Error: Unable to find 'typemaps.i' error: command 'swig' failed with exit status 1 Error: Unable to upgrade port: 1
comment:8 follow-up: 9 Changed 16 years ago by henkpoley@…
Fixed it, you need swig with python variant (ram, can you add that as a dependency?):
noname:~ henk$ sudo port info swig swig 1.3.36, devel/swig (Variants: universal, doc, python, perl, gcj, guile, mzscheme, ruby, php4, ocaml, pike, lua, chicken, allegro, clisp, r) http://www.swig.org/ SWIG is a software development tool that connects programs written in C and C++ with a variety of high-level programming languages. SWIG is primarily used with common scripting languages such as Perl, Python, Tcl/Tk, Ruby, Guile and MzScheme, however the list of supported languages also includes non-scripting languages such as Java and OCAML. SWIG is most commonly used to create high-level interpreted programming environments, user interfaces, and as a tool for testing and prototyping C/C++ software. SWIG may be freely used, distributed, and modified for commercial and noncommercial use. Build Dependencies: bison, gsed Platforms: darwin Maintainers: kevin@macports.org jwa@macports.org noname:~ henk$ sudo port activate swig ---> Activating swig ---> The following versions of swig are currently installed: ---> swig @1.3.35_0 ---> swig @1.3.36_0 (active) Error: port activate failed: Registry error: Please specify the full version as recorded in the port registry. noname:~ henk$ sudo port install swig+python Error: Port swig+python not found noname:~ henk$ sudo port install swig +python ---> Fetching swig ---> Verifying checksum(s) for swig ---> Extracting swig ---> Configuring swig ---> Building swig ---> Staging swig into destroot ---> Installing swig 1.3.36_0+python ---> Activating swig 1.3.36_0+python Error: Target org.macports.activate returned: Image error: Another version of this port (swig @1.3.36_0) is already active. Error: Status 1 encountered during processing. noname:~ henk$ sudo port deactivate swig ---> Deactivating swig noname:~ henk$ sudo port install swig +python ---> Activating swig 1.3.36_0+python ---> Cleaning swig noname:~ henk$ sudo port upgrade py25-scipy ---> Activating swig 1.3.36_0+python Error: Activating swig 1.3.36_0 failed: Image error: swig @1.3.36_0+python is already active. ---> Building py25-scipy with target build ---> Staging py25-scipy into destroot ---> Deactivating py25-scipy 0.6.0_9+gcc43 ---> Installing py25-scipy 0.6.0_10+gcc43 ---> Activating py25-scipy 0.6.0_10+gcc43 ---> Cleaning py25-scipy
comment:9 Changed 16 years ago by skymoo (Adam Mercer)
Replying to henkpoley@gmail.com:
Fixed it, you need swig with python variant (ram, can you add that as a dependency?):
In a word, no. MacPorts currently doesn't provide a way to specify dependencies on variants.
comment:10 Changed 16 years ago by skymoo (Adam Mercer)
There may be a way to error out on install if the python variant of swig is not installed. I'll take a look.
comment:11 Changed 16 years ago by ralph@…
"MacPorts currently doesn't provide a way to specify dependencies on variants."
Sounds like someone ought to raise this as a high priority bug in MacPorts. There's not much point having variants if one cannot depend on them.
comment:12 follow-up: 13 Changed 16 years ago by mnoga@…
I just want to add that the same issue concerns py-scipy port and the fix suggested by henk works there too. So ram, if you could please fix the py-scipy port too it will be much appreciated.
comment:13 follow-up: 14 Changed 16 years ago by skymoo (Adam Mercer)
Replying to mnoga@smp.if.uj.edu.pl:
I just want to add that the same issue concerns py-scipy port and the fix suggested by henk works there too. So ram, if you could please fix the py-scipy port too it will be much appreciated.
It shouldn't as the swig port currently only provides swig bindings for python25 not python24.
comment:14 Changed 16 years ago by mnoga@…
Replying to ram@macports.org:
It shouldn't as the swig port currently only provides swig bindings for python25 not python24.
Apparently it does affect python24 too:
mary:ms2 m$ sudo port upgrade py-scipy ---> Fetching py-scipy ---> Verifying checksum(s) for py-scipy ---> Extracting py-scipy ---> Applying patches to py-scipy ---> Configuring py-scipy ---> Building py-scipy with target build Error: Target org.macports.build returned: shell command " cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_python_py-scipy/work/scipy-0.6.0" && /opt/local/bin/python2.4 setup.py config_fc --fcompiler gnu95 --f77exec /opt/local/bin/gfortran-mp-4.2 --f90exec /opt/local/bin/gfortran-mp-4.2 build " returned error 1 Command output: Constructing wrapper function "dgmresrevcom"... x,iter,resid,info,ndx1,ndx2,sclr1,sclr2,ijob = dgmresrevcom(b,x,restrt,work,work2,iter,resid,info,ndx1,ndx2,ijob) Constructing wrapper function "cgmresrevcom"... x,iter,resid,info,ndx1,ndx2,sclr1,sclr2,ijob = cgmresrevcom(b,x,restrt,work,work2,iter,resid,info,ndx1,ndx2,ijob) Constructing wrapper function "zgmresrevcom"... x,iter,resid,info,ndx1,ndx2,sclr1,sclr2,ijob = zgmresrevcom(b,x,restrt,work,work2,iter,resid,info,ndx1,ndx2,ijob) Constructing wrapper function "sstoptest2"... bnrm2,resid,info = sstoptest2(r,b,bnrm2,tol,info) Constructing wrapper function "dstoptest2"... bnrm2,resid,info = dstoptest2(r,b,bnrm2,tol,info) Constructing wrapper function "cstoptest2"... bnrm2,resid,info = cstoptest2(r,b,bnrm2,tol,info) Constructing wrapper function "zstoptest2"... bnrm2,resid,info = zstoptest2(r,b,bnrm2,tol,info) Wrote C/API module "_iterative" to file "build/src.macosx-10.3-i386-2.4/build/src.macosx-10.3-i386-2.4/scipy/linalg/iterative/_iterativemodule.c" adding 'build/src.macosx-10.3-i386-2.4/fortranobject.c' to sources. adding 'build/src.macosx-10.3-i386-2.4' to include_dirs. building extension "scipy.linsolve._zsuperlu" sources building extension "scipy.linsolve._dsuperlu" sources building extension "scipy.linsolve._csuperlu" sources building extension "scipy.linsolve._ssuperlu" sources building extension "scipy.linsolve.umfpack.__umfpack" sources creating build/src.macosx-10.3-i386-2.4/scipy/linsolve creating build/src.macosx-10.3-i386-2.4/scipy/linsolve/umfpack adding 'scipy/linsolve/umfpack/umfpack.i' to sources. swig: scipy/linsolve/umfpack/umfpack.i swig -python -o build/src.macosx-10.3-i386-2.4/scipy/linsolve/umfpack/_umfpack_wrap.c -outdir build/src.macosx-10.3-i386-2.4/scipy/linsolve/umfpack scipy/linsolve/umfpack/umfpack.i :3: Error: Unable to find 'python.swg' scipy/linsolve/umfpack/umfpack.i:233: Error: Unable to find 'typemaps.i' error: command 'swig' failed with exit status 1 Error: Unable to upgrade port: 1 mary:ms2 m$ sudo port install swig +python ---> Fetching swig ---> Verifying checksum(s) for swig ---> Extracting swig ---> Configuring swig ---> Building swig ---> Staging swig into destroot ---> Installing swig 1.3.36_0+python ---> Activating swig 1.3.36_0+python Error: Target org.macports.activate returned: Image error: Another version of this port (swig @1.3.36_0) is already active. Error: Status 1 encountered during processing. mary:ms2 m$ sudo port deactivate swig Password: ---> Deactivating swig mary:ms2 m$ sudo port install swig +python ---> Activating swig 1.3.36_0+python ---> Cleaning swig mary:ms2 m$ sudo port upgrade py-scipy ---> Activating swig 1.3.36_0+python Error: Activating swig 1.3.36_0 failed: Image error: swig @1.3.36_0+python is already active. ---> Building py-scipy with target build ---> Staging py-scipy into destroot ---> Deactivating py-scipy 0.6.0_7+gcc42 ---> Installing py-scipy 0.6.0_9+gcc42 ---> Activating py-scipy 0.6.0_9+gcc42 ---> Cleaning py-scipy
or this is caused because I'm using gcc42 variant? (BTW: I've tested gcc43 variant of py-scipy too and got the same issue)
comment:15 Changed 16 years ago by skymoo (Adam Mercer)
This is the appropriate section of the swig port:
set bindings {
python python25 python=${prefix}/bin/python2.5
perl perl5.8 perl5
gcj gcj34 gcj
guile guile guile
mzscheme mzscheme mzscheme
ruby ruby ruby
php4 php4 php4
ocaml ocaml ocaml
pike pike pike
lua lua lua
chicken chicken chicken
allegro allegro allegrocl
clisp clisp clisp
r R r
}
i.e. the python variant provides bindings for python25, not python24. The files that are actually installed are independent of a specific python version but as the port currently stands it adds a dependency on python25.
comment:16 Changed 16 years ago by skymoo (Adam Mercer)
comment:17 Changed 16 years ago by skymoo (Adam Mercer)
| Resolution: | → fixed |
|---|---|
| Status: | assigned → closed |
the swig port has been modified to build the python variant by default so this issue should now be resolved, however it will add an extra dependency on python25 for the python24 version. That issue is being tracked in #15854.
comment:18 Changed 16 years ago by ralph@…
| Resolution: | fixed |
|---|---|
| Status: | closed → reopened |
This has gone from bad to worse. port now tries to install php and ruby on my machine as swig also depends on those. It is crazy to install php and ruby when the user asks for py25-scipy...
comment:19 Changed 16 years ago by skymoo (Adam Mercer)
| Resolution: | → fixed |
|---|---|
| Status: | reopened → closed |
thats an issue with swig not scipy
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