------------------------------------------------------------------------------- -- Phase: setup ------------------------------------------------------------------------------- Installing /packages/All/metis-5.1.0_8.txz Installing /packages/All/tbb-2020.1.txz Installing /packages/All/indexinfo-0.3.1.txz Installing /packages/All/gmp-6.2.0.txz Installing /packages/All/mpfr-4.0.2.txz Installing /packages/All/mpc-1.1.0_2.txz UNFLAVORED devel/binutils -> use devel/binutils@native Installing /packages/All/gettext-runtime-0.20.1.txz Installing /packages/All/binutils-2.33.1_2,1.txz Installing /packages/All/gcc8-8.4.0.txz ===== Message from gcc8-8.4.0: -- To ensure binaries built with this toolchain find appropriate versions of the necessary run-time libraries, you may want to link using -Wl,-rpath=/usr/local/lib/gcc8 For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens transparently. Installing /packages/All/openblas-0.3.7_2,1.txz Installing /packages/All/suitesparse-5.4.0_5.txz Installing /packages/All/expat-2.2.8.txz Installing /packages/All/libffi-3.2.1_3.txz Installing /packages/All/ncurses-6.1.20190525.txz Installing /packages/All/readline-8.0.4.txz Installing /packages/All/openssl-1.1.1d,1.txz Installing /packages/All/python27-2.7.17_1.txz ===== Message from python27-2.7.17_1: -- Note that some standard Python modules are provided as separate ports as they require additional dependencies. They are available as: bsddb databases/py-bsddb gdbm databases/py-gdbm sqlite3 databases/py-sqlite3 tkinter x11-toolkits/py-tkinter Installing /packages/All/py27-setuptools-44.0.0.txz ===== Message from py27-setuptools-44.0.0: -- Only /usr/local/bin/easy_install-2.7 script has been installed since Python 2.7 is not the default Python version. Installing /packages/All/py27-numpy-1.16.5_4,1.txz UNFLAVORED devel/binutils -> use devel/binutils@native UNFLAVORED devel/binutils -> use devel/binutils@native UNFLAVORED devel/binutils -> use devel/binutils@native SUCCEEDED 00:00:42 ------------------------------------------------------------------------------- -- Phase: check-sanity ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: pkg-depends ------------------------------------------------------------------------------- ===> py27-pynleq2-0.0.2_5 depends on file: /usr/local/sbin/pkg - found SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: fetch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: fetch ------------------------------------------------------------------------------- ===> py27-pynleq2-0.0.2_5 depends on file: /usr/local/sbin/pkg - found => pynleq2-0.0.2.tar.gz doesn't seem to exist in /distfiles/. => Attempting to fetch https://files.pythonhosted.org/packages/source/p/pynleq2/pynleq2-0.0.2.tar.gz pynleq2-0.0.2.tar.gz 0% of 6219 B 0 Bps pynleq2-0.0.2.tar.gz 6219 B 25 MBps 00s => PySCeS-pysces-0.9.6_GH0.tar.gz doesn't seem to exist in /distfiles/. => Attempting to fetch https://codeload.github.com/PySCeS/pysces/tar.gz/0.9.6?dummy=/PySCeS-pysces-0.9.6_GH0.tar.gz fetch: https://codeload.github.com/PySCeS/pysces/tar.gz/0.9.6?dummy=/PySCeS-pysces-0.9.6_GH0.tar.gz: size unknown fetch: https://codeload.github.com/PySCeS/pysces/tar.gz/0.9.6?dummy=/PySCeS-pysces-0.9.6_GH0.tar.gz: size of remote file is not known PySCeS-pysces-0.9.6_GH0.tar.gz 0 B 0 Bps PySCeS-pysces-0.9.6_GH0.tar.gz 48 kB 1193 kBps PySCeS-pysces-0.9.6_GH0.tar.gz 2611 kB 5376 kBps 01s ===> Fetching all distfiles required by py27-pynleq2-0.0.2_5 for building SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: checksum ------------------------------------------------------------------------------- ===> py27-pynleq2-0.0.2_5 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py27-pynleq2-0.0.2_5 for building => SHA256 Checksum OK for pynleq2-0.0.2.tar.gz. => SHA256 Checksum OK for PySCeS-pysces-0.9.6_GH0.tar.gz. SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: extract ------------------------------------------------------------------------------- ===> py27-pynleq2-0.0.2_5 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py27-pynleq2-0.0.2_5 for building ===> Extracting for py27-pynleq2-0.0.2_5 ===> py27-pynleq2-0.0.2_5 depends on file: /usr/local/sbin/pkg - found ===> Fetching all distfiles required by py27-pynleq2-0.0.2_5 for building => SHA256 Checksum OK for pynleq2-0.0.2.tar.gz. => SHA256 Checksum OK for PySCeS-pysces-0.9.6_GH0.tar.gz. Extracted Memory Use: 7.25M SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: patch-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: patch ------------------------------------------------------------------------------- ===> Patching for py27-pynleq2-0.0.2_5 ===> Applying ports patches for py27-pynleq2-0.0.2_5 /usr/bin/env WRKSRC=/construction/math/py-pynleq2/pynleq2-0.0.2 REWARNFILE=/construction/math/py-pynleq2/reinplace_warnings.txt /xports/Tools/scripts/sed_checked.sh -e "s@flang@gfortran@g" /construction/math/py-pynleq2/pynleq2-0.0.2/setup.py SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: build-depends ------------------------------------------------------------------------------- ===> py27-pynleq2-0.0.2_5 depends on package: py27-numpy>=1.15,1<1.19,1 - found ===> py27-pynleq2-0.0.2_5 depends on executable: gfortran8 - found ===> py27-pynleq2-0.0.2_5 depends on package: py27-setuptools>0 - found ===> py27-pynleq2-0.0.2_5 depends on file: /usr/local/bin/python2.7 - found ===> py27-pynleq2-0.0.2_5 depends on file: /usr/local/bin/as - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: lib-depends ------------------------------------------------------------------------------- SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: configure ------------------------------------------------------------------------------- ===> py27-pynleq2-0.0.2_5 depends on package: py27-numpy>=1.15,1<1.19,1 - found ===> py27-pynleq2-0.0.2_5 depends on executable: gfortran8 - found ===> py27-pynleq2-0.0.2_5 depends on package: py27-setuptools>0 - found ===> py27-pynleq2-0.0.2_5 depends on file: /usr/local/bin/python2.7 - found ===> py27-pynleq2-0.0.2_5 depends on file: /usr/local/bin/as - found ===> Configuring for py27-pynleq2-0.0.2_5 running config SUCCEEDED 00:00:01 ------------------------------------------------------------------------------- -- Phase: build ------------------------------------------------------------------------------- ===> Building for py27-pynleq2-0.0.2_5 /construction/math/py-pynleq2/pysces-0.9.6/pysces/nleq2/zibmon.f:384:55-69: $ 'The following indices are active', (INDACT(I),I=0,IONCNT) 1 2 Warning: Array reference at (1) out of bounds (0 < 1) in loop beginning at (2) /construction/math/py-pynleq2/pysces-0.9.6/pysces/nleq2/zibmon.f:394:55-69: $ 'The following indices are active', (INDACT(I),I=0,IONCNT) 1 2 Warning: Array reference at (1) out of bounds (0 < 1) in loop beginning at (2) running build running config_cc unifing config_cc, config, build_clib, build_ext, build commands --compiler options running config_fc unifing config_fc, config, build_clib, build_ext, build commands --fcompiler options running build_src build_src building extension "pynleq2.nleq2" sources creating build creating build/src.dragonfly-5.9-x86_64-2.7 creating build/src.dragonfly-5.9-x86_64-2.7/nleq2 f2py options: [] f2py: nleq2/nleq2.pyf Reading fortran codes... Reading file 'nleq2/nleq2.pyf' (format:free) Line #58 in nleq2/nleq2.pyf:"end python module nleq2.f " crackline:1: No pattern for line crackline: groupcounter=1 groupname={0: '', 1: 'python module', 2: 'interface', 3: 'subroutine'} crackline: Mismatch of blocks encountered. Trying to fix it by assuming "end" statement. Post-processing... Block: nleq2__user__routines Block: nleq2_user_interface Block: fcn Block: jac Block: nleq2 Block: nleq2 Block: nleq2 In: nleq2/nleq2.pyf:nleq2:nleq2:nleq2 get_useparameters: no module nleq2__user__routines info used by nleq2 Post-processing (stage 2)... Building modules... Constructing call-back function "cb_fcn_in_nleq2__user__routines" def fcn(x,ifail,[n]): return f,ifail Constructing call-back function "cb_jac_in_nleq2__user__routines" def jac(x,[n,m1]): return a Building module "nleq2"... Constructing wrapper function "nleq2"... x,xscal,rtol,iopt,ierr = nleq2(fcn,jac,x,xscal,rtol,iopt,iwk,rwk,[n,liwk,lrwk,fcn_extra_args,jac_extra_args]) Wrote C/API module "nleq2" to file "build/src.dragonfly-5.9-x86_64-2.7/nleq2/nleq2module.c" adding 'build/src.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7/nleq2/fortranobject.c' to sources. adding 'build/src.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7/nleq2' to include_dirs. creating build/src.dragonfly-5.9-x86_64-2.7/build creating build/src.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7 creating build/src.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7/nleq2 copying /usr/local/lib/python2.7/site-packages/numpy/f2py/src/fortranobject.c -> build/src.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7/nleq2 copying /usr/local/lib/python2.7/site-packages/numpy/f2py/src/fortranobject.h -> build/src.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7/nleq2 build_src: building npy-pkg config files running build_py creating build/lib.dragonfly-5.9-x86_64-2.7 creating build/lib.dragonfly-5.9-x86_64-2.7/pynleq2 copying pynleq2/__init__.py -> build/lib.dragonfly-5.9-x86_64-2.7/pynleq2 copying pynleq2/_release.py -> build/lib.dragonfly-5.9-x86_64-2.7/pynleq2 creating build/lib.dragonfly-5.9-x86_64-2.7/pynleq2/tests copying pynleq2/tests/__init__.py -> build/lib.dragonfly-5.9-x86_64-2.7/pynleq2/tests copying pynleq2/tests/test_solve.py -> build/lib.dragonfly-5.9-x86_64-2.7/pynleq2/tests running build_ext customize UnixCCompiler C compiler: cc -fno-strict-aliasing -pipe -I/usr/local/include -I/usr/local/include/ncurses -O2 -fno-strict-aliasing -DNDEBUG -pipe -O2 -fno-strict-aliasing -fPIC creating /tmp/tmp0nE_Qt/tmp creating /tmp/tmp0nE_Qt/tmp/tmp0nE_Qt compile options: '-MMD -MF /tmp/tmp0nE_Qt/file.c.d -c' cc: /tmp/tmp0nE_Qt/file.c customize UnixCCompiler using build_ext building 'pynleq2.nleq2' extension compiling C sources C compiler: cc -fno-strict-aliasing -pipe -I/usr/local/include -I/usr/local/include/ncurses -O2 -fno-strict-aliasing -DNDEBUG -pipe -O2 -fno-strict-aliasing -fPIC creating build/temp.dragonfly-5.9-x86_64-2.7/build creating build/temp.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7 creating build/temp.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7/nleq2 creating build/temp.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7/build creating build/temp.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7 creating build/temp.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7/nleq2 compile options: '-Ibuild/src.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7/nleq2 -I/usr/local/lib/python2.7/site-packages/numpy/core/include -I/usr/local/include/python2.7 -c' cc: build/src.dragonfly-5.9-x86_64-2.7/nleq2/nleq2module.c cc: build/src.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7/nleq2/fortranobject.c In file included from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4, from build/src.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7/nleq2/fortranobject.h:13, from build/src.dragonfly-5.9-x86_64-2.7/nleq2/nleq2module.c:16: /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it with " \ ^~~~~~~ In file included from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, from /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4, from build/src.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7/nleq2/fortranobject.h:13, from build/src.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7/nleq2/fortranobject.c:2: /usr/local/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] #warning "Using deprecated NumPy API, disable it with " \ ^~~~~~~ cc -shared -Wl,-rpath=/usr/local/lib/gcc8 -L/usr/local/lib/gcc8 -Wl,-rpath=/usr/local/lib/gcc8 -L/usr/local/lib/gcc8 -B/usr/local/bin -pipe -O2 -fno-strict-aliasing build/temp.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7/nleq2/nleq2module.o build/temp.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7/nleq2/fortranobject.o -L../.fbuild -L/usr/local/gfortran/lib -L/usr/local/lib -lff -lgfortran -lexecinfo -lpython2.7 -o build/lib.dragonfly-5.9-x86_64-2.7/pynleq2/nleq2.so /usr/local/bin/ld: /usr/lib/libc.so: .dynsym local symbol at index 8 (>= sh_info of 6) SUCCEEDED 00:00:06 ------------------------------------------------------------------------------- -- Phase: run-depends ------------------------------------------------------------------------------- ===> py27-pynleq2-0.0.2_5 depends on executable: gfortran8 - found ===> py27-pynleq2-0.0.2_5 depends on package: py27-setuptools>0 - found ===> py27-pynleq2-0.0.2_5 depends on file: /usr/local/bin/python2.7 - found SUCCEEDED 00:00:00 ------------------------------------------------------------------------------- -- Phase: stage ------------------------------------------------------------------------------- ===> Staging for py27-pynleq2-0.0.2_5 ===> py27-pynleq2-0.0.2_5 depends on executable: gfortran8 - found ===> py27-pynleq2-0.0.2_5 depends on package: py27-setuptools>0 - found ===> py27-pynleq2-0.0.2_5 depends on file: /usr/local/bin/python2.7 - found ===> Generating temporary packing list running install running build running config_cc unifing config_cc, config, build_clib, build_ext, build commands --compiler options running config_fc unifing config_fc, config, build_clib, build_ext, build commands --fcompiler options running build_src build_src building extension "pynleq2.nleq2" sources f2py options: [] adding 'build/src.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7/nleq2/fortranobject.c' to sources. adding 'build/src.dragonfly-5.9-x86_64-2.7/build/src.dragonfly-5.9-x86_64-2.7/nleq2' to include_dirs. build_src: building npy-pkg config files running build_py running build_ext customize UnixCCompiler C compiler: cc -fno-strict-aliasing -pipe -I/usr/local/include -I/usr/local/include/ncurses -O2 -fno-strict-aliasing -DNDEBUG -pipe -O2 -fno-strict-aliasing -fPIC creating /tmp/tmpd0d3IP/tmp creating /tmp/tmpd0d3IP/tmp/tmpd0d3IP compile options: '-MMD -MF /tmp/tmpd0d3IP/file.c.d -c' cc: /tmp/tmpd0d3IP/file.c customize UnixCCompiler using build_ext running install_lib creating /construction/math/py-pynleq2/stage/usr/local/lib/python2.7 creating /construction/math/py-pynleq2/stage/usr/local/lib/python2.7/site-packages creating /construction/math/py-pynleq2/stage/usr/local/lib/python2.7/site-packages/pynleq2 copying build/lib.dragonfly-5.9-x86_64-2.7/pynleq2/_release.py -> /construction/math/py-pynleq2/stage/usr/local/lib/python2.7/site-packages/pynleq2 copying build/lib.dragonfly-5.9-x86_64-2.7/pynleq2/__init__.py -> /construction/math/py-pynleq2/stage/usr/local/lib/python2.7/site-packages/pynleq2 creating /construction/math/py-pynleq2/stage/usr/local/lib/python2.7/site-packages/pynleq2/tests copying build/lib.dragonfly-5.9-x86_64-2.7/pynleq2/tests/test_solve.py -> /construction/math/py-pynleq2/stage/usr/local/lib/python2.7/site-packages/pynleq2/tests copying build/lib.dragonfly-5.9-x86_64-2.7/pynleq2/tests/__init__.py -> /construction/math/py-pynleq2/stage/usr/local/lib/python2.7/site-packages/pynleq2/tests copying build/lib.dragonfly-5.9-x86_64-2.7/pynleq2/nleq2.so -> /construction/math/py-pynleq2/stage/usr/local/lib/python2.7/site-packages/pynleq2 byte-compiling /construction/math/py-pynleq2/stage/usr/local/lib/python2.7/site-packages/pynleq2/_release.py to _release.pyc byte-compiling /construction/math/py-pynleq2/stage/usr/local/lib/python2.7/site-packages/pynleq2/__init__.py to __init__.pyc byte-compiling /construction/math/py-pynleq2/stage/usr/local/lib/python2.7/site-packages/pynleq2/tests/test_solve.py to test_solve.pyc byte-compiling /construction/math/py-pynleq2/stage/usr/local/lib/python2.7/site-packages/pynleq2/tests/__init__.py to __init__.pyc writing byte-compilation script '/tmp/tmpGF44cT.py' /usr/local/bin/python2.7 -O /tmp/tmpGF44cT.py removing /tmp/tmpGF44cT.py running install_egg_info running egg_info creating pynleq2.egg-info writing pynleq2.egg-info/PKG-INFO writing top-level names to pynleq2.egg-info/top_level.txt writing dependency_links to pynleq2.egg-info/dependency_links.txt writing manifest file 'pynleq2.egg-info/SOURCES.txt' reading manifest file 'pynleq2.egg-info/SOURCES.txt' writing manifest file 'pynleq2.egg-info/SOURCES.txt' Copying pynleq2.egg-info to /construction/math/py-pynleq2/stage/usr/local/lib/python2.7/site-packages/pynleq2-0.0.2-py2.7.egg-info running install_scripts running install_clib customize UnixCCompiler C compiler: cc -fno-strict-aliasing -pipe -I/usr/local/include -I/usr/local/include/ncurses -O2 -fno-strict-aliasing -DNDEBUG -pipe -O2 -fno-strict-aliasing -fPIC creating /tmp/tmpPgY9ul/tmp creating /tmp/tmpPgY9ul/tmp/tmpPgY9ul compile options: '-MMD -MF /tmp/tmpPgY9ul/file.c.d -c' cc: /tmp/tmpPgY9ul/file.c writing list of installed files to '/construction/math/py-pynleq2/.PLIST.pymodtmp' ====> Compressing man pages (compress-man) ====> Running Q/A tests (stage-qa) Error: /usr/local/lib/python2.7/site-packages/pynleq2/nleq2.so is linked to /usr/local/lib/libintl.so.8 from devel/gettext-runtime but it is not declared as a dependency Warning: you need USES+=gettext-runtime Warning: You have disabled the licenses framework with DISABLE_LICENSES, unable to run checks Warning: Possible REINPLACE_CMD issues sed failed: file content unchanged from backup: setup.py SUCCEEDED 00:00:03 ------------------------------------------------------------------------------- -- Phase: package ------------------------------------------------------------------------------- ===> Building package for py27-pynleq2-0.0.2_5 file sizes/checksums [17]: 0% file sizes/checksums [17]: 100% packing files [17]: 0% packing files [17]: 100% packing directories [0]: 0% packing directories [0]: 100% SUCCEEDED 00:00:00 TOTAL TIME 00:00:55