On Fri, 22 Oct 2010 16:09:15 +0200, Mateusz Koryciński wrote: > Hi, > > I need to install Cogent via python installation script. Unfortunately > after typing in command line: "python setup.py build" or "python > setup.py install" (I've tried with sudo as well) I receive something > like that: > > running install > running build > running build_py > running build_ext > building 'cogent.align._compare' extension gcc -pthread > -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes > -fPIC > -I/home/mateusz/Programy/Bioinfo/Cogent/include > -I/usr/lib/python2.6/dist-packages/numpy/core/include > -I/usr/include/python2.6 -c cogent/align/_compare.c -o > build/temp.linux-i686-2.6/cogent/align/_compare.o -w > cogent/align/_compare.c:4:20: error: Python.h: No such file or directory > cogent/align/_compare.c:5:26: error: structmember.h: No such file or > directory > cogent/align/_compare.c:7:6: error: #error Python headers needed to > compile C extensions, please install development version of Python. > error: command 'gcc' failed with exit status 1 > > > So I'm trying to install Python 3.2 - after 'make install' command at > the end I receive: > > Removing > /usr/local/lib/python3.2/lib-dynload/Python-3.2a3-py3.2.egg-info Writing > /usr/local/lib/python3.2/lib-dynload/Python-3.2a3-py3.2.egg-info > Creating directory /usr/local/share/man/man1 /usr/bin/install: can't > create directory `/usr/local/share/man/man1': File exists > make: *** [maninstall] Error 1 > > Of course I've tried as a root move (not copy) man directory from > /usr/local/share/ to root /home but it have not helped at all. > > Could somebody help me? > > Will be very thankfully. > > Best Regards, > Mateusz > > <!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN"> <html> > <head> > > <meta http-equiv="content-type" content="text/html; charset=UTF-8"> > </head> > <body text="#000000" bgcolor="#ffffff"> Hi,<br> > <br> > I need to install Cogent via python installation script. Unfortunately > after typing in command line: "python setup.py build" or "python > setup.py install" (I've tried with sudo as well) I receive something > like that:<br> > <font color="#000066"><br> > running install<br> > running build<br> > running build_py<br> > running build_ext<br> > building 'cogent.align._compare' extension<br> gcc -pthread > -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes > -fPIC > -I/home/mateusz/Programy/Bioinfo/Cogent/include > -I/usr/lib/python2.6/dist-packages/numpy/core/include > -I/usr/include/python2.6 -c cogent/align/_compare.c -o > build/temp.linux-i686-2.6/cogent/align/_compare.o -w<br> > cogent/align/_compare.c:4:20: error: Python.h: No such file or > directory<br> cogent/align/_compare.c:5:26: error: structmember.h: No > such file or directory<br> > cogent/align/_compare.c:7:6: error: #error Python headers needed to > compile C extensions, please install development version of Python.<br> > error: command 'gcc' failed with exit status 1</font><br> <br> > <br> > So I'm trying to install Python 3.2 - after 'make install' command at > the end I receive:<br> > <br> > <font color="#000066">Removing > /usr/local/lib/python3.2/lib-dynload/Python-3.2a3-py3.2.egg-info<br> > Writing > /usr/local/lib/python3.2/lib-dynload/Python-3.2a3-py3.2.egg-info<br> > Creating directory /usr/local/share/man/man1<br> /usr/bin/install: can't > create directory `/usr/local/share/man/man1': File exists<br> > make: *** [maninstall] Error 1</font><br> <br> > Of course I've tried as a root move (not copy) man directory from > /usr/local/share/ to root /home but it have not helped at all.<br> <br> > Could somebody help me?<br> > <br> > Will be very thankfully. <br> > <pre class="moz-signature" cols="72">Best Regards, Mateusz > </pre> > </body> > </html>
Hi Mateusz, What distro are you using, assuming from the tb that your on linux or a POSIX OS? Basically what is happening is that part of Cogent has some c code optimization and needs to be linked against python. For the link to occur it needs the headers files and object/libraries. The problem is that most distros don't install the headers files by default for python and most packages. For debian/ubuntu just run 'apt get install python- dev' and i believe for rhel/centos/fedora run 'yum install python-devel'. This should now let you compile cogent. Cheers, Rob -- http://mail.python.org/mailman/listinfo/python-list
