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35 Open 155 Closed
35 Open 155 Closed
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Issues list

Automatic cleanup with nf-boost
#289 opened Apr 25, 2024 by bentsherman
fastq_merge is very inefficent bug
#288 opened Mar 21, 2024 by JohnHadish
@JohnHadish
1
Stringtie prepDE.py script does not take sequence length into consideration bug
#287 opened Feb 2, 2024 by JohnHadish
1
MultiQC for STAR alignment incorrect bug
#285 opened Jan 9, 2024 by Huiting120
1
withLabel does not work bug
#284 opened Oct 24, 2023 by Huiting120
GEMmaker not pulling test files (failed to pull sample URLs) bug
#283 opened Oct 23, 2023 by feltus
@spficklin
nextflow cannot open cache dir bug
#282 opened Sep 1, 2023 by abbye1093
1
GEMmaker not running bug
#281 opened Aug 22, 2023 by ldunwoodie
2
Running local files through trimmomatic fails if file does not end with ".fastq" (e.g. ."fq") bug
#280 opened Aug 18, 2023 by JohnHadish
2
Log File Should Occasionally output system time enhancement
#279 opened May 4, 2023 by JohnHadish
GEMmaker documentation--using gffread to make GTF file bug
#278 opened Apr 15, 2023 by ko0000
GEMMAKER not writing results after very quick run time on Clemson Palmetto cluster bug
#277 opened Feb 23, 2023 by feltus
@spficklin @feltus @JohnHadish
2
create_gem rewrite with join enhancement
#273 opened Jan 18, 2023 by JohnHadish
baseDir has been deprecated bug low-priority
#271 opened Nov 29, 2022 by JohnHadish
Not able to modify fastq_merge memory default bug
#270 opened Nov 28, 2022 by JohnHadish
3
Log file cuts at 80 characters enhancement
#269 opened Nov 24, 2022 by JohnHadish
Fail on resume due to file not being present in stage directory bug
#268 opened Nov 23, 2022 by JohnHadish
1
GEMmaker no longer creates nextflow reports by default enhancement
#267 opened Nov 19, 2022 by JohnHadish
@JohnHadish
3
StringTie prepDE.py script needs length argument for calculating raw counts bug
#266 opened Nov 14, 2022 by JohnHadish
1
Output GEM format is not tidy enhancement
#265 opened Oct 31, 2022 by JohnHadish
Documentation Fixes documentation
#264 opened Oct 21, 2022 by spficklin
clean_work_dirs bug bug
#263 opened Apr 22, 2022 by cbmckni
3
Need to Increase Number of lines in output bug
#262 opened Mar 29, 2022 by JohnHadish
Report of Default Memory, time, etc. enhancement
#261 opened Mar 28, 2022 by JohnHadish
Updates to docs documentation
#260 opened Mar 16, 2022 by spficklin
ProTip! Follow long discussions with comments:>50.