ncbi pgap issues - Githubissues

ncbi / pgap

NCBI Prokaryotic Genome Annotation Pipeline

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[BUG] Failing to run some sequences

#312 jmemrava closed 1 week ago
2
Species_Requirement_option

#311 cristoyerenahs closed 2 weeks ago
1
[BUG] PGAP fails on test genome when PGAP_INPUT_DIR set to other than default

#310 mdziurzynski closed 2 days ago
4
[BUG] Genus species requirement

#309 rsieskind closed 2 weeks ago
8
ORF prediction issue

#308 tangwei825 closed 2 weeks ago
3
PGAP for multiple users

#307 vappiah closed 1 month ago
2
source code for gc_get_molecules

#306 OH-AU closed 2 months ago
2
Error: Final process status is permanentFail

#305 sekhwal closed 1 month ago
17
Error: Final process status is permanentFail

#304 sekhwal closed 2 months ago
7
Get_Proteins_app issues

#303 asd1864714 closed 2 weeks ago
14
[Error] Docker exited with rc =1

#302 namho4577 closed 2 months ago
2
[Error] Docker exited with rc = 1

#301 namho4577 closed 2 months ago
3
[BUG] Final process status is permanentFail

#300 namho4577 closed 2 months ago
1
Update pgap.py

#299 iskold opened 2 months ago
1
product protein name issues

#298 asd1864714 closed 2 months ago
3
Create yeast_tat

#297 TatendaCal closed 2 months ago
0
[BUG] Fail in GenBank output file

#296 juansebe1 closed 2 days ago
9
[BUG] -c flag not received: /mnt/shared/scratch/theaven/uncompressed/hogenhout/pgap-s7

#295 TCHeaven closed 3 months ago
1
[BUG] A YAML file argument cannot be used in combination with either the -s/--organism or -g/--genome arguments

#294 TCHeaven closed 3 months ago
8
Create AcrB

#293 Ssjeela closed 3 months ago
0
pgap --update showing huge file size during installation

#292 Sabarish2001 closed 3 months ago
19
[FEATURE REQUEST] Support for Charlie Cloud Docker compatible (but more secure) container system for HPC

#291 idlfuente closed 4 months ago
1
[BUG] Failing to run my own sequence

#290 kfsb closed 3 months ago
19
[FEATURE REQUEST] Workaround for "taskset: failed to set pid 0's affinity"-Bug

#289 MrTomRod closed 4 months ago
2
[BUG] checkm dies with "OSError: AF_UNIX path too long"

#288 MrTomRod closed 3 months ago
5
[FEATURE REQUEST] Quit if no SSE4.2 support is detected

#287 MrTomRod closed 4 months ago
6
[BUG] WARNING Final process status is permanentFail

#286 snackens closed 4 months ago
9
Create EPer1

#285 Nistelrealy1988 closed 5 months ago
0
[BUG] <title>How to run pgap.py with qsub file.

#284 wurunbiao162 closed 4 months ago
5
PIPELINE TEST w/ M. genitalium - PermissionError: [Errno 13] Permission denied: '/pgap/output/debug/tmpdir

#283 raysully closed 6 months ago
38
[BUG] <title>The length of the gene exceeds the length of the conitg

#282 Moo-cow closed 4 months ago
10
[BUG] Binding non-existent file

#281 kkrick-sdsu opened 7 months ago
6
[FEATURE REQUEST] <Turn Off GO annotation>

#280 greg-harhay closed 4 months ago
7
[FEATURE REQUEST] Any plans about EGAP (Eukaryotic Genome Annotation Pipeline)?

#279 GRGong closed 7 months ago
2
Problem with running pgap annotation

#278 Subhajeet1997 closed 4 months ago
1
[FEATURE REQUEST] Unable to retrieve additional reference data from https://s3.amazonaws.com/pgap/input-[version].tgz.

#277 Tayvich closed 7 months ago
2
[BUG] PGAP analysis generates all files except .aa and .gbk

#276 Chahrazadt87 closed 4 months ago
35
Running PGAP with Metagenomic Assembled Genome

#275 kevinmyers closed 4 months ago
11
[FEATURE REQUEST] direct S3 access to input datasets

#274 jvolkening closed 6 months ago
5
[BUG] When two input genomes have same basename, the first genome is mistakenly used for the second run.

#273 pvstodghill closed 2 days ago
4
[BUG] PGAP fails install when running on singularity.

#272 Ge0rges closed 8 months ago
2
[BUG] pgap.py --update

#271 nptgiang0211 closed 4 months ago
3
[BUG] Podman: container name is not respected

#270 MrTomRod closed 4 months ago
3
Failed to get rootless runtime dir

#269 tbazilegith closed 4 months ago
2
pgap.py not found with docker container ncbi/pgap

#268 tbazilegith closed 4 months ago
4
[FEATURE REQUEST] Add a prefix to the output files of PGAP.

#267 Dx-wmc closed 4 months ago
2
[FEATURE REQUEST] ARM64 support

#265 rjavier17 closed 11 months ago
2
[BUG] SIGBUS error on HPC using singularity

#264 AdrianZrm opened 11 months ago
9
[FEATURE REQUEST] Custom database for annotation

#263 zinque closed 11 months ago
3
Advice on using PGAPs HMMs with another annotation tool

#262 tarunaaggarwal closed 11 months ago
1