Fedora Account System
Red Hat Associate
Red Hat Customer
Several problems arise from this, a good way to test is by loading two PDB archives containing proteins and then running align. In this case the following error is generated PyMOL>align AF-P22303-F1-model_v4, protein_processed Match-Error: unable to open matrix file '/usr/lib64/python3.13/site-packages/pymol/data/pymol/matrices/BLOSUM62'. The software is searching for data in the data folder, however in that folder only an icon is present. The data is located at /usr/lib64/python3.13/site-packages/pymol/pymol_path/data The following can be used as a temporary fix. mv /usr/lib64/python3.13/site-packages/pymol/data /usr/lib64/python3.13/site-packages/pymol/old_data ln -s /usr/lib64/python3.13/site-packages/pymol/pymol_path/data /usr/lib64/python3.13/site-packages/pymol/data Reproducible: Always Steps to Reproduce: 1. Open pymol preferrably from terminal to read the output 2. Load two archives containing protein data 3. Run the command aling <protein1>, <oriteub2> Actual Results: Match-Error: unable to open matrix file '/usr/lib64/python3.13/site-packages/pymol/data/pymol/matrices/BLOSUM62'. Expected Results: Aligned protein
FEDORA-2025-1df4860ed0 (pymol-3.1.0-8.fc42) has been submitted as an update to Fedora 42. https://bodhi.fedoraproject.org/updates/FEDORA-2025-1df4860ed0
FEDORA-2025-1df4860ed0 has been pushed to the Fedora 42 testing repository. Soon you'll be able to install the update with the following command: `sudo dnf upgrade --enablerepo=updates-testing --refresh --advisory=FEDORA-2025-1df4860ed0` You can provide feedback for this update here: https://bodhi.fedoraproject.org/updates/FEDORA-2025-1df4860ed0 See also https://fedoraproject.org/wiki/QA:Updates_Testing for more information on how to test updates.
FEDORA-2025-1df4860ed0 (pymol-3.1.0-8.fc42) has been pushed to the Fedora 42 stable repository. If problem still persists, please make note of it in this bug report.