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ncbi
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pgap
NCBI Prokaryotic Genome Annotation Pipeline
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[BUG] A YAML file argument cannot be used in combination with either the -s/--organism or -g/--genome arguments. The -s/--organism and the -g/--genome arguments replace the YAML file argument input.
#320
yulinpengcool
opened
11 hours ago
0
[BUG] <title> installation failed
#319
BlackMonolith
opened
15 hours ago
0
PGAP failed on metatranscriptome data
#318
asifratul
opened
4 days ago
0
[BUG] Docker exited with rc = 1
#317
skyds4499
closed
6 days ago
4
[BUG] <title>PGAP failed
#316
StickHu
opened
2 weeks ago
5
[BUG] PGAP failed, docker exited with rc = 1
#315
AnmotCar
closed
3 weeks ago
11
[BUG] GFF3 output file does not contain sequence-region name
#314
watsonar
closed
1 month ago
3
[BUG] FATAL: "cwltool": executable file not found in $PATH in 2024-04-27.build7426
#313
komais
closed
1 month ago
4
[BUG] Failing to run some sequences
#312
jmemrava
closed
2 months ago
2
Species_Requirement_option
#311
cristoyerenahs
closed
2 months ago
1
[BUG] PGAP fails on test genome when PGAP_INPUT_DIR set to other than default
#310
mdziurzynski
closed
2 months ago
4
[BUG] Genus species requirement
#309
rsieskind
closed
2 months ago
8
ORF prediction issue
#308
tangwei825
closed
2 months ago
3
PGAP for multiple users
#307
vappiah
closed
3 months ago
2
source code for gc_get_molecules
#306
OH-AU
closed
4 months ago
2
Error: Final process status is permanentFail
#305
sekhwal
closed
3 months ago
17
Error: Final process status is permanentFail
#304
sekhwal
closed
4 months ago
7
Get_Proteins_app issues
#303
asd1864714
closed
2 months ago
14
[Error] Docker exited with rc =1
#302
namho4577
closed
4 months ago
2
[Error] Docker exited with rc = 1
#301
namho4577
closed
4 months ago
3
[BUG] Final process status is permanentFail
#300
namho4577
closed
4 months ago
1
Update pgap.py
#299
iskold
closed
1 month ago
3
product protein name issues
#298
asd1864714
closed
4 months ago
3
Create yeast_tat
#297
TatendaCal
closed
4 months ago
0
[BUG] Fail in GenBank output file
#296
juansebe1
closed
2 months ago
9
[BUG] -c flag not received: /mnt/shared/scratch/theaven/uncompressed/hogenhout/pgap-s7
#295
TCHeaven
closed
5 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
5 months ago
9
Create AcrB
#293
Ssjeela
closed
5 months ago
0
pgap --update showing huge file size during installation
#292
Sabarish2001
closed
5 months ago
19
[FEATURE REQUEST] Support for Charlie Cloud Docker compatible (but more secure) container system for HPC
#291
idlfuente
closed
6 months ago
1
[BUG] Failing to run my own sequence
#290
kfsb
closed
5 months ago
19
[FEATURE REQUEST] Workaround for "taskset: failed to set pid 0's affinity"-Bug
#289
MrTomRod
closed
6 months ago
2
[BUG] checkm dies with "OSError: AF_UNIX path too long"
#288
MrTomRod
closed
5 months ago
5
[FEATURE REQUEST] Quit if no SSE4.2 support is detected
#287
MrTomRod
closed
6 months ago
6
[BUG] WARNING Final process status is permanentFail
#286
snackens
closed
6 months ago
9
Create EPer1
#285
Nistelrealy1988
closed
7 months ago
0
[BUG] <title>How to run pgap.py with qsub file.
#284
wurunbiao162
closed
6 months ago
5
PIPELINE TEST w/ M. genitalium - PermissionError: [Errno 13] Permission denied: '/pgap/output/debug/tmpdir
#283
raysully
closed
8 months ago
38
[BUG] <title>The length of the gene exceeds the length of the conitg
#282
Moo-cow
closed
6 months ago
10
[BUG] Binding non-existent file
#281
kkrick-sdsu
opened
9 months ago
6
[FEATURE REQUEST] <Turn Off GO annotation>
#280
greg-harhay
closed
6 months ago
7
[FEATURE REQUEST] Any plans about EGAP (Eukaryotic Genome Annotation Pipeline)?
#279
GRGong
closed
9 months ago
2
Problem with running pgap annotation
#278
Subhajeet1997
closed
6 months ago
1
[FEATURE REQUEST] Unable to retrieve additional reference data from https://s3.amazonaws.com/pgap/input-[version].tgz.
#277
Tayvich
closed
9 months ago
2
[BUG] PGAP analysis generates all files except .aa and .gbk
#276
Chahrazadt87
closed
6 months ago
35
Running PGAP with Metagenomic Assembled Genome
#275
kevinmyers
closed
6 months ago
11
[FEATURE REQUEST] direct S3 access to input datasets
#274
jvolkening
closed
8 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 months ago
4
[BUG] PGAP fails install when running on singularity.
#272
Ge0rges
closed
10 months ago
2
[BUG] pgap.py --update
#271
nptgiang0211
closed
6 months ago
3
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