BIRCHv3.80

[return to Release To Do List]

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install-scripts

• setplatform.py - DONE. Added step to explicitly set world-read permissions for $birch/local/admin platform.source and platform.profile.source. On flamingo, for some reason, when these files were modified, the directory world-read permissions would not be used. flamingo is the only system where I have observed this problem, but just to be safe, I run chmod to force permissions to be set.

BioLegato

• Should we add a Settings and BLHelper menu to all BioLegato applications?
  • pro
    • convenient, intuitive
  • con
    • user will expect changes to take effect within the current object, or all open objects, which will be confusing. Maybe its safer to only have these changes in birch, so that you have to launch a new object to have changes take effect.

bldna, blprotein

• update BLASTviewer to latest version.
• Add email notification to FASTA searches
• blprotein - DONE PXHOM can only take upper case amino acids. PXHOM.blmenu translates aa's to uppercase before calling phom.py.

TESTING

host	system	status
CCL - BIRCHDEV	RHEL7	completed
brassica - Fedora33 VM	fedora 33	completed
brassica	MATE Ubuntu 18.0.4 LTS	completed
peacock	MacOSX	completed
maui	Ubuntu MATE 18.0.4 LTS	completed
wotan	Scientific Linux 7	completed
flamingo	Ubuntu MATE 18.0.4 LTS	completed
triticum	Ubuntu MATE 20.04.2 LTS	completed
CCL - psgendb	RHEL7