Description of problem: Both PyMOL 1.6.0 (current package) and 1.7.0.1 (upstream source) appear to run with python-2.6, but some features malfuction (e.g. graphical artefacts). When installing and running with python-2.7, the 1.7.0.1 is better. Previous version (1.5?) had less issues. Version-Release number of selected component (if applicable): 1.6.0 Steps to Reproduce (one example): 1. Load PDB file 2. Mutate one residue Actual results: Old residue is removed and atoms of new residue are created. Each atom is in separate (varying type) residue and all of them are in the beginning of the sequence. Expected results: One new residue is created in the sequence position of the old and it contains all of its atoms. Additional info: I do presume that python 2.6 and 2.7 differ in such way that the pymol does not crash, but some operations produce unexpected results, if 2.6 is used.
If I do a mock build on el6: http://koji.fedoraproject.org/koji/taskinfo?taskID=6546004 it pulls in python 2.6 by default, and I don't expect/think that will change in the near future?
True, by definition that should never change for the lifetime of el6. RedHat has introduced Software Collections (SCL), which are not part of RHEL. The current collection includes python27 and python33. https://access.redhat.com/site/documentation/en-US/Red_Hat_Software_Collections/1/html/1.0_Release_Notes/chap-RHSCL.html#sect-RHSCL-About Therefore, Python 2.7 could be found from *a* yum-repo for el6, but not from Base repo. Furthermore, current Pymol requires modules numpy and Pmw, which have not been rpm-packaged for SCL's python27 as far as I know. In ideal world the SCL becomes easily available soon and el6-packages can make use of it.
FEDORA-2020-206634eafc has been submitted as an update to Fedora 30. https://bodhi.fedoraproject.org/updates/FEDORA-2020-206634eafc
mmtf-cpp-1.0.0-2.fc30, pymol-2.3.0-4.fc30 has been pushed to the Fedora 30 testing repository. If problems still persist, please make note of it in this bug report. See https://fedoraproject.org/wiki/QA:Updates_Testing for instructions on how to install test updates. You can provide feedback for this update here: https://bodhi.fedoraproject.org/updates/FEDORA-2020-206634eafc
mmtf-cpp-1.0.0-2.fc30, pymol-2.3.0-4.fc30 has been pushed to the Fedora 30 stable repository. If problems still persist, please make note of it in this bug report.
This message is a reminder that EPEL 6 is nearing its end of life. Fedora will stop maintaining and issuing updates for EPEL 6 on 2020-11-30. It is our policy to close all bug reports from releases that are no longer maintained. At that time this bug will be closed as EOL if it remains open with a 'version' of 'el6'. Package Maintainer: If you wish for this bug to remain open because you plan to fix it in a currently maintained version, simply change the 'version' to a later EPEL version. Thank you for reporting this issue and we are sorry that we were not able to fix it before EPEL 6 is end of life. If you would still like to see this bug fixed and are able to reproduce it against a later version of Fedora, you are encouraged change the 'version' to a later Fedora version prior this bug is closed as described in the policy above.
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