[PyMOL] fink install fail: pymol-0.86-4
Hi all: I'll continue on a thread from a couple of weeks ago, re: failed fink-based installs of pymol over the past month or so. Here's the machine setup: - attempting to install pymol-0.86-4 onto OS 10.2.4 - python (2.3a2-1), python22 (2.2.2-4) and python22-shlibs (2.2.4) all installed - running Apple's X11 (v0.2 and now 0.3) w/SDK installed, other X programs compiling OK Output from the build attached below --- anyone have any insights here? Thanks, Kevin -- cd pyopengl;make cc -ffast-math -no-cpp-precomp -g -I/sw/include -I/sw/include/python2.2 -I/usr/X11R6/include -D_HAVE_LIBPNG -D_PYMOL_MODULE -D_PYMOL_NUMPY -DHAVE_ARRAYOBJECT_H -c _glu_nummodule.c -DPythonTypes In file included from _glu_nummodule.c:8: _glumodule.c: In function `py_glu_NewTess': _glumodule.c:346: warning: passing arg 3 of `gluTessCallback' from incompatible pointer type _glumodule.c:347: warning: passing arg 3 of `gluTessCallback' from incompatible pointer type _glumodule.c:348: warning: passing arg 3 of `gluTessCallback' from incompatible pointer type _glumodule.c:349: warning: passing arg 3 of `gluTessCallback' from incompatible pointer type _glumodule.c:351: warning: passing arg 3 of `gluTessCallback' from incompatible pointer type In file included from _glu_nummodule.c:8: _glumodule.c:637:33: Numeric/arrayobject.h: No such file or directory _glumodule.c: In function `py_glu_Build2DMipmaps': _glumodule.c:723: `PyArrayObject' undeclared (first use in this function) _glumodule.c:723: (Each undeclared identifier is reported only once _glumodule.c:723: for each function it appears in.) _glumodule.c:723: `ap' undeclared (first use in this function) _glumodule.c:741: parse error before ')' token _glumodule.c:744: parse error before ')' token make[2]: *** [_glu_nummodule.o] Error 1 make[1]: *** [make-pyopengl] Error 2 make: *** [.contrib] Error 2 ### execution of make failed, exit code 2 Failed: compiling pymol-0.86-4 failed -- ** Kevin Gardner, Ph.D. kevin.gard...@utsouthwestern.edu Asst. Professor, Dept. of Biochemistry, UT Southwestern Medical Center 214-648-8916/FAX: -8947 http://freedom7.swmed.edu
RE: [PyMOL] fink install fail: pymol-0.86-4
Kevin, It looks to me like you are missing Numeric Python. Either you need to remove the _PYMOL_NUMPY option from the Rules.make, or you need Numpy installed. There is likely a Fink package which contains it, but I suspect this dependency may have been missed in the creation of the Fink PyMOL package. A quick workaround would be to remove the _PYMOL_NUMPY define from the PyMOL Rules.make file. Cheers, Warren -- mailto:war...@sunesis.com Warren L. DeLano, Ph.D. Informatics Manager Sunesis Pharmaceuticals, Inc. 341 Oyster Point Blvd. S. San Francisco, CA 94080 (650)-266-3606 FAX:(650)-266-3501 -Original Message- From: Kevin Gardner [mailto:kevin.gard...@utsouthwestern.edu] Sent: Tuesday, March 18, 2003 10:59 AM To: pymol-users@lists.sourceforge.net Subject: [PyMOL] fink install fail: pymol-0.86-4 Hi all: I'll continue on a thread from a couple of weeks ago, re: failed fink-based installs of pymol over the past month or so. Here's the machine setup: - attempting to install pymol-0.86-4 onto OS 10.2.4 - python (2.3a2-1), python22 (2.2.2-4) and python22-shlibs (2.2.4) all installed - running Apple's X11 (v0.2 and now 0.3) w/SDK installed, other X programs compiling OK Output from the build attached below --- anyone have any insights here? Thanks, Kevin -- cd pyopengl;make cc -ffast-math -no-cpp-precomp -g -I/sw/include -I/sw/include/python2.2 -I/usr/X11R6/include -D_HAVE_LIBPNG -D_PYMOL_MODULE -D_PYMOL_NUMPY -DHAVE_ARRAYOBJECT_H -c _glu_nummodule.c -DPythonTypes In file included from _glu_nummodule.c:8: _glumodule.c: In function `py_glu_NewTess': _glumodule.c:346: warning: passing arg 3 of `gluTessCallback' from incompatible pointer type _glumodule.c:347: warning: passing arg 3 of `gluTessCallback' from incompatible pointer type _glumodule.c:348: warning: passing arg 3 of `gluTessCallback' from incompatible pointer type _glumodule.c:349: warning: passing arg 3 of `gluTessCallback' from incompatible pointer type _glumodule.c:351: warning: passing arg 3 of `gluTessCallback' from incompatible pointer type In file included from _glu_nummodule.c:8: _glumodule.c:637:33: Numeric/arrayobject.h: No such file or directory _glumodule.c: In function `py_glu_Build2DMipmaps': _glumodule.c:723: `PyArrayObject' undeclared (first use in this function) _glumodule.c:723: (Each undeclared identifier is reported only once _glumodule.c:723: for each function it appears in.) _glumodule.c:723: `ap' undeclared (first use in this function) _glumodule.c:741: parse error before ')' token _glumodule.c:744: parse error before ')' token make[2]: *** [_glu_nummodule.o] Error 1 make[1]: *** [make-pyopengl] Error 2 make: *** [.contrib] Error 2 ### execution of make failed, exit code 2 Failed: compiling pymol-0.86-4 failed -- ** Kevin Gardner, Ph.D. kevin.gard...@utsouthwestern.edu Asst. Professor, Dept. of Biochemistry, UT Southwestern Medical Center 214-648-8916/FAX: -8947 http://freedom7.swmed.edu --- This SF.net email is sponsored by: Does your code think in ink? You could win a Tablet PC. Get a free Tablet PC hat just for playing. What are you waiting for? http://ads.sourceforge.net/cgi-bin/redirect.pl?micr5043en ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users
Re: [PyMOL] fink install fail: pymol-0.86-4
On 18/3/03 8:42 pm, DeLano, Warren war...@sunesis.com wrote: There is likely a Fink package which contains it, but I suspect this dependency may have been missed in the creation of the Fink PyMOL package. I installed PyMOL using Fink Commander on MacOS X 10.2.4. Fink Commander will download the source files and compile them automatically. PyMOL works nicely under Apple's X11 beta. Ian -- Ian Robinson - Belfast - UK http://www.canicula.com
Re: [PyMOL] fink install fail: pymol-0.86-4
Do this, fink install python-2.2.2 fink rebuild numeric fink rebuild pmw fink install pymol Cheers Matt On Wednesday, Mar 19, 2003, at 05:58 Australia/Sydney, Kevin Gardner wrote: Hi all: I'll continue on a thread from a couple of weeks ago, re: failed fink-based installs of pymol over the past month or so. Here's the machine setup: - attempting to install pymol-0.86-4 onto OS 10.2.4 - python (2.3a2-1), python22 (2.2.2-4) and python22-shlibs (2.2.4) all installed - running Apple's X11 (v0.2 and now 0.3) w/SDK installed, other X programs compiling OK Output from the build attached below --- anyone have any insights here? Thanks, Kevin -- cd pyopengl;make cc -ffast-math -no-cpp-precomp -g -I/sw/include -I/sw/include/python2.2 -I/usr/X11R6/include -D_HAVE_LIBPNG -D_PYMOL_MODULE -D_PYMOL_NUMPY -DHAVE_ARRAYOBJECT_H -c _glu_nummodule.c -DPythonTypes In file included from _glu_nummodule.c:8: _glumodule.c: In function `py_glu_NewTess': _glumodule.c:346: warning: passing arg 3 of `gluTessCallback' from incompatible pointer type _glumodule.c:347: warning: passing arg 3 of `gluTessCallback' from incompatible pointer type _glumodule.c:348: warning: passing arg 3 of `gluTessCallback' from incompatible pointer type _glumodule.c:349: warning: passing arg 3 of `gluTessCallback' from incompatible pointer type _glumodule.c:351: warning: passing arg 3 of `gluTessCallback' from incompatible pointer type In file included from _glu_nummodule.c:8: _glumodule.c:637:33: Numeric/arrayobject.h: No such file or directory _glumodule.c: In function `py_glu_Build2DMipmaps': _glumodule.c:723: `PyArrayObject' undeclared (first use in this function) _glumodule.c:723: (Each undeclared identifier is reported only once _glumodule.c:723: for each function it appears in.) _glumodule.c:723: `ap' undeclared (first use in this function) _glumodule.c:741: parse error before ')' token _glumodule.c:744: parse error before ')' token make[2]: *** [_glu_nummodule.o] Error 1 make[1]: *** [make-pyopengl] Error 2 make: *** [.contrib] Error 2 ### execution of make failed, exit code 2 Failed: compiling pymol-0.86-4 failed -- ** Kevin Gardner, Ph.D. kevin.gard...@utsouthwestern.edu Asst. Professor, Dept. of Biochemistry, UT Southwestern Medical Center 214-648-8916/FAX: -8947 http://freedom7.swmed.edu --- This SF.net email is sponsored by: Does your code think in ink? You could win a Tablet PC. Get a free Tablet PC hat just for playing. What are you waiting for? http://ads.sourceforge.net/cgi-bin/redirect.pl?micr5043en ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users
RE: [PyMOL] Transparent cartoons?
Fred, Not currently. To the rest of the list: How important is this to people? Please send me an email directly if you think it would be an important feature to add. Warren -- mailto:war...@sunesis.com Warren L. DeLano, Ph.D. Informatics Manager Sunesis Pharmaceuticals, Inc. 341 Oyster Point Blvd. S. San Francisco, CA 94080 (650)-266-3606 FAX:(650)-266-3501 -Original Message- From: Fred Berkovitch [mailto:fr...@mit.edu] Sent: Monday, March 17, 2003 6:41 PM To: pymol-users@lists.sourceforge.net Subject: [PyMOL] Transparent cartoons? Hello everyone, Can pymol make transparent cartoons? If so, how? -Fred --- This SF.net email is sponsored by:Crypto Challenge is now open! Get cracking and register here for some mind boggling fun and the chance of winning an Apple iPod: http://ads.sourceforge.net/cgi-bin/redirect.pl?thaw0031en ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users