Spanin-finding using TMHMM+Lipobox

TAMU-CPT / CPT-ToolshedSource

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Spanin-finding using TMHMM+Lipobox #15

Open curtisim0 opened 3 months ago

curtisim0 commented 3 months ago

Enhance spanin finding tool (away from naive search) and leverage TMHMM + Lipobox + cpt_intersect_adjacent tool.

@jasonjgill to provide more detail (edit)

jasonjgill commented 3 months ago

First I should see if the existing tools can be chained in usegalaxy, will report back

jasonjgill commented 2 months ago

the tool cpt_intersect_adjacent fails, with the following error code:

Traceback (most recent call last): File "/opt/galaxy/shed_tools/toolshed.g2.bx.psu.edu/repos/cpt/cpt_intersect_adjacent/7e393668b4b9/cpt_intersect_adjacent/cpt_intersect_adj/intersect_and_adjacent.py", line 4, in from intervaltree import IntervalTree, Interval ModuleNotFoundError: No module named 'intervaltree'