meuleman epilogos issues

meuleman / epilogos

Methods for summarizing and visualizing multi-biosample functional genomic annotations

https://epilogos.net

GNU General Public License v3.0

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issues

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Plotregion searches region for nearest bin if no exact match found

#32 alexpreynolds closed 1 year ago
0
Bump scipy from 1.9.3 to 1.10.0

#31 dependabot[bot] opened 1 year ago
0
Fix typo in plotregion URL

#30 alexpreynolds closed 1 year ago
0
Negative values interpretation

#29 asalhab closed 2 years ago
2
Minimal non-Slurm paired test failed

#28 alexpreynolds closed 3 years ago
1
Patch suggestion for running minimal, non-Slurm single mode test

#27 alexpreynolds closed 3 years ago
0
Patch for warning about setup property

#26 alexpreynolds closed 3 years ago
0
Uncertain what the use of `sleep` here is for

#25 alexpreynolds closed 3 years ago
1
Consider wrapping `subprocess` calls in `try/except` blocks

#24 alexpreynolds opened 3 years ago
0
Consider using touch approach to create empty files

#23 alexpreynolds closed 3 years ago
1
Consider exposing Slurm-specific parameters to `click` options

#22 alexpreynolds closed 3 years ago
1
Consider using Python `None` instead of string to represent null value

#21 alexpreynolds closed 3 years ago
2
Consider using type hints in function definitions to indicate types of variables and returned data

#20 alexpreynolds opened 3 years ago
1
Consider using `sys.stderr.write` or logging library in place of `print`

#19 alexpreynolds closed 3 years ago
2
Consider using `click` library to handle command-line options

#18 alexpreynolds closed 3 years ago
1
Consider having one entry point to running epilogos in various forms

#17 alexpreynolds closed 3 years ago
1
General bash suggestions

#16 alexpreynolds closed 3 years ago
4
Consider using `requirements.txt` at the root level to specify dependencies

#15 alexpreynolds closed 3 years ago
1
For bash scripts, consider using `set -u` with other options

#14 alexpreynolds closed 3 years ago
2
Create LICENSE

#13 meuleman closed 3 years ago
0
No reason to call this "bootstrapping" -- rather just call it sampling

#12 meuleman closed 3 years ago
1
Comments for /epilogos/src/computeEpilogosGreatestHits.py

#11 NaluTripician closed 3 years ago
1
only get the statePairs.txt, no starch or score.txt.gz file

#10 ykai16 closed 4 years ago
5
computeEpilogos_minimal.sh *** buffer overflow detected *** error

#9 joscho92 closed 5 years ago
2
Question about groupSpec argument

#8 joscho92 closed 5 years ago
1
why need to process by chromosome

#7 crazyhottommy closed 6 years ago
4
Docs update 031318

#6 alexpreynolds closed 6 years ago
0
computeEpilogos_singleChromosomeSingleProcessor.sh needs to send fewer arguments to computeEpilogosPart2_perChrom.cpp

#5 erynes closed 6 years ago
2
qcat file specification

#4 crazyhottommy closed 6 years ago
8
Docs update 020818

#3 alexpreynolds closed 6 years ago
0
test run failed

#2 crazyhottommy closed 6 years ago
7
more on README?

#1 crazyhottommy closed 6 years ago
2