Hi Johannes, Johannes Eichner wrote:
Dear Galaxy Team,
I just updated my local instance of galaxy, and now I have a problem with the "DRMAA_python" egg, which makes it impossible to run jobs on our SGE cluster. I get the following error message after executing "run.sh":
...
gcc -pthread -fno-strict-aliasing -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m32 -march=i386 -mtune=generic -fasynchronous-unwind\ -tables -D_GNU_SOURCE -fPIC -fwrapv -fPIC -I/opt/sge-6.1/include -I/usr/include/python2.6 -c cDRMAA_wrap.c -o build/temp.linux-i686-2.6/cDRMAA_wrap.o -Wno-unused cDRMAA_wrap.c:13:20: error: Python.h: No such file or directory
It looks like you need to install the python-dev package, then compilation should succeed. --nate
cDRMAA_wrap.c:358: error: expected specifier-qualifier-list before ‘PyObject’ cDRMAA_wrap.c:364: error: expected specifier-qualifier-list before ‘PyObject_HEAD’ ... error: command 'gcc' failed with exit status 1 Traceback (most recent call last): File "scripts/scramble.py", line 44, in <module> egg.scramble() File "/rahome/webservices/galaxy_test/lib/galaxy/eggs/scramble.py", line 57, in scramble self.run_scramble_script() File "/rahome/webservices/galaxy_test/lib/galaxy/eggs/scramble.py", line 206, in run_scramble_script raise ScrambleFailure( self, "%s(): Egg build failed for %s %s" % ( sys._getframe().f_code.co_name, self.name, self.version ) ) galaxy.eggs.scramble.ScrambleFailure: run_scramble_script(): Egg build failed for DRMAA_python 0.2
____________________
I would very much appreciate your help in fixing this problem.
Kind regards, Johannes
-- Dipl.-Inf. (Bioinf.) Johannes Eichner Univ. Tuebingen, WSI-RA, Sand 1, D-72076 Tuebingen, Germany Phone: (+49/0) 7071 / 29 70436 Fax: (+49/0) 7071 / 29 5091 ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: