#48 Problem installing healpy

Milestone: v3.10+

Status: closed-out-of-date

Owner: Eric Hivon

Labels: None

Priority: 1

Updated: 2019-12-19

Created: 2014-04-25

Creator: Anonymous

Private: No

I am having an error installing healpix. I was able to install f90, c And cpp after adding the flag "-fno-tree-fre" to the C compiler flags during compilation in config.basic_gcc I got same error during healpy installation Any help is appreciated.

Thanks
Deepak

No Cython >= 0.14 found, defaulting to pregenerated c version.
running build
running build_py
running build_clib
make -w -C healpixcxx/src/cxx HEALPIX_TARGET=healpy HEALPIX_EXTRAFLAGS=-fopenmp -march=native CC=gcc CXX=g++ CL=gcc CXXL=g++ BLDROOT=/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6 LIBDIR=/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6 INCDIR=/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6 BINDIR=/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6
make[1]: Entering directory `/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx'

compiling libsharp/sharp_core.c

cd /home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6/libsharp && gcc -I/home/dk1306/ursa_hammurabi/packages/install/include -I/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/c_utils -I/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/libfftpack -I/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/libsharp -I/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/cxxsupport -I/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/Healpix_cxx -I/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/alice -I/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6 -Wall -Wextra -Wno-long-long -Wno-unknown-pragmas -Wshadow -Wmissing-prototypes -Wfatal-errors -fPIC -O2 -ffast-math -fomit-frame-pointer -fopenmp -march=native -fno-strict-aliasing -std=c99 -pedantic -fdata-sections -ffunction-sections -c /home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/libsharp/sharp_core.c
In file included from /home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/libsharp/sharp_core_inchelper.c:21,
from /home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/libsharp/sharp_core.c:69:
/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/libsharp/sharp_core_inc2.c: In function ‘calc_map2alm_5_1’:
/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/libsharp/sharp_core_inc2.c:222: internal compiler error: in extract_component, at tree-complex.c:616
Please submit a full bug report,
with preprocessed source if appropriate.
See http://bugzilla.redhat.com/bugzilla for instructions.
Preprocessed source stored into /tmp/ccmJIkWJ.out file, please attach this to your bugreport.
make[1]: *** [/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6/libsharp/sharp_core.o] Error 1
make[1]: Leaving directory /home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx' Traceback (most recent call last): File "setup.py", line 307, in <module> license='GPLv2' File "/usr/lib64/python2.6/distutils/core.py", line 152, in setup dist.run_commands() File "/usr/lib64/python2.6/distutils/dist.py", line 975, in run_commands self.run_command(cmd) File "/usr/lib64/python2.6/distutils/dist.py", line 995, in run_command cmd_obj.run() File "/usr/lib64/python2.6/distutils/command/build.py", line 134, in run self.run_command(cmd_name) File "/usr/lib64/python2.6/distutils/cmd.py", line 333, in run_command self.distribution.run_command(command) File "/usr/lib64/python2.6/distutils/dist.py", line 995, in run_command cmd_obj.run() File "/usr/lib64/python2.6/distutils/command/build_clib.py", line 127, in run self.build_libraries(self.libraries) File "setup.py", line 160, in build_libraries subprocess.check_call(cmdline) File "/usr/lib64/python2.6/subprocess.py", line 502, in check_call raise CalledProcessError(retcode, cmd) subprocess.CalledProcessError: Command '['make', '-w', '-C', 'healpixcxx/src/cxx', 'HEALPIX_TARGET=healpy', 'HEALPIX_EXTRAFLAGS=-fopenmp -march=native', 'CC=gcc', 'CXX=g++', 'CL=gcc', 'CXXL=g++', 'BLDROOT=/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6', 'LIBDIR=/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6', 'INCDIR=/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6', 'BINDIR=/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6']' returned non-zero exit status 2 Using Healpix configuration healpy for system "linux" Extra flags used: "-fopenmp -march=native" No Cython >= 0.14 found, defaulting to pregenerated c version. running install running build running build_py running build_clib make -w -C healpixcxx/src/cxx HEALPIX_TARGET=healpy HEALPIX_EXTRAFLAGS=-fopenmp -march=native CC=gcc CXX=g++ CL=gcc CXXL=g++ BLDROOT=/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6 LIBDIR=/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6 INCDIR=/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6 BINDIR=/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6 make[1]: Entering directory/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx'

compiling libsharp/sharp_core.c

cd /home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6/libsharp && gcc -I/home/dk1306/ursa_hammurabi/packages/install/include -I/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/c_utils -I/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/libfftpack -I/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/libsharp -I/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/cxxsupport -I/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/Healpix_cxx -I/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/alice -I/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6 -Wall -Wextra -Wno-long-long -Wno-unknown-pragmas -Wshadow -Wmissing-prototypes -Wfatal-errors -fPIC -O2 -ffast-math -fomit-frame-pointer -fopenmp -march=native -fno-strict-aliasing -std=c99 -pedantic -fdata-sections -ffunction-sections -c /home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/libsharp/sharp_core.c
In file included from /home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/libsharp/sharp_core_inchelper.c:21,
from /home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/libsharp/sharp_core.c:69:
/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/libsharp/sharp_core_inc2.c: In function ‘calc_map2alm_5_1’:
/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx/libsharp/sharp_core_inc2.c:222: internal compiler error: in extract_component, at tree-complex.c:616
Please submit a full bug report,
with preprocessed source if appropriate.
See http://bugzilla.redhat.com/bugzilla for instructions.
Preprocessed source stored into /tmp/ccPo4sr7.out file, please attach this to your bugreport.
make[1]: *** [/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6/libsharp/sharp_core.o] Error 1
make[1]: Leaving directory `/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/cxx'
Traceback (most recent call last):
File "setup.py", line 307, in <module>
license='GPLv2'
File "/usr/lib64/python2.6/distutils/core.py", line 152, in setup
dist.run_commands()
File "/usr/lib64/python2.6/distutils/dist.py", line 975, in run_commands
self.run_command(cmd)
File "/usr/lib64/python2.6/distutils/dist.py", line 995, in run_command
cmd_obj.run()
File "/usr/lib64/python2.6/distutils/command/install.py", line 577, in run
self.run_command('build')
File "/usr/lib64/python2.6/distutils/cmd.py", line 333, in run_command
self.distribution.run_command(command)
File "/usr/lib64/python2.6/distutils/dist.py", line 995, in run_command
cmd_obj.run()
File "/usr/lib64/python2.6/distutils/command/build.py", line 134, in run
self.run_command(cmd_name)
File "/usr/lib64/python2.6/distutils/cmd.py", line 333, in run_command
self.distribution.run_command(command)
File "/usr/lib64/python2.6/distutils/dist.py", line 995, in run_command
cmd_obj.run()
File "/usr/lib64/python2.6/distutils/command/build_clib.py", line 127, in run
self.build_libraries(self.libraries)
File "setup.py", line 160, in build_libraries
subprocess.check_call(cmdline)
File "/usr/lib64/python2.6/subprocess.py", line 502, in check_call
raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command '['make', '-w', '-C', 'healpixcxx/src/cxx', 'HEALPIX_TARGET=healpy', 'HEALPIX_EXTRAFLAGS=-fopenmp -march=native', 'CC=gcc', 'CXX=g++', 'CL=gcc', 'CXXL=g++', 'BLDROOT=/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6', 'LIBDIR=/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6', 'INCDIR=/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6', 'BINDIR=/home/dk1306/ursa_hammurabi/packages/Healpix_3.11/src/healpy/build/temp.linux-x86_64-2.6']' returned non-zero exit status 2</module>

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Eric Hivon - 2019-12-19

status: open --> closed-out-of-date
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Problem installing healpy

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#48 Problem installing healpy

compiling libsharp/sharp_core.c

compiling libsharp/sharp_core.c

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