Mark-A-Taylor comments

Results 8 comments of


                                            Mark-A-Taylor

Can predict.py use my output folder for workspace instead of the directory of my input genome file?

Clever idea - but - unfortunatley the ICA (Illumina Connected Analytics) platform does not reveal that level of control to users. It is a GUI interface driving CWL configurations on...

Can predict.py use my output folder for workspace instead of the directory of my input genome file?

JP: Any further thoughts on this topic? I do think your code base benefits from an enhancement to remove the assumption that the user has write permission on the folder...

Can predict.py use my output folder for workspace instead of the directory of my input genome file?

The code changes look great but the predict command is now failing for me when building off of the new image dockerhub tag 'nextgenusfs/funannotate:latest'. I can illustrate the failure using...

Can predict.py use my output folder for workspace instead of the directory of my input genome file?

JP: Thanks for the heads up. FAVOR to ask if you have time while you are tweaking the dockerhub build image.. could you add perl packages MCE::Mutex and Math::Utils to...

Can predict.py use my output folder for workspace instead of the directory of my input genome file?

sorry but I am not sure. I am trying to get my head around genemark for the first time now. Those two packages (MCE::Mutex and Math::Utils) are checked as part...

Can predict.py use my output folder for workspace instead of the directory of my input genome file?

Thanks!! Looks better - dockerhub image 'nextgenusfs/funannotate:latest' is crunching through 'funannotate test -t all' now. I'll let you know if I hit any issues or see anything fishy. Thanks again!

Can predict.py use my output folder for workspace instead of the directory of my input genome file?

heads up: it looks like the unit testing fails for BOTH the old and new dockerhub images: 'nextgenusfs/funannotate:v1.8.9' & 'nextgenusfs/funannotate:latest', resp, when grinding through 'funannotate test -t all' at the...

Can predict.py use my output folder for workspace instead of the directory of my input genome file?

more useless information for you.... i mispoke: the compare test still works in the 'nextgenusfs/funannotate:v1.8.9' which uses matplotlib 3.4.2 (asot 3.5.2). matplotlib chirps that deprecation is coming: "/venv/lib/python3.8/site-packages/funannotate/library.py:7921: MatplotlibDeprecationWarning: Calling...