ComparativeGenomicsToolkit cactus issues

ComparativeGenomicsToolkit / cactus

Official home of genome aligner based upon notion of Cactus graphs

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issues

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Revert back to mafRowOrderer from taffy sort

#1338 glennhickey closed 5 months ago
0
On species tree and branch lengths

#1337 diego-rt opened 5 months ago
1
add range support for cactus-hal2maf

#1336 glennhickey closed 5 months ago
1
cactus-hal2maf on specific genomic intervals

#1335 cjmcmanus closed 5 months ago
0
cactus-hal2chains makeover

#1334 glennhickey closed 5 months ago
0
Job 'RedMaskJob' kind-PreprocessSequence/instance-rmupfpbr v8 is completely failed

#1333 song984888 closed 5 months ago
3
cactus-maf2bigmaf script fails with 'NoneType' error

#1332 crinfante closed 5 months ago
3
Trying to run cactus-hal2maf with --refGenome Anc0

#1331 BlackSlipper closed 6 months ago
2
update taffy

#1330 glennhickey closed 5 months ago
0
Question about ancestral genome length too short

#1329 qiqizhang01 closed 6 months ago
2
Fix bug where RED prerpocessing crashes if input 100% unmasked

#1328 glennhickey closed 6 months ago
0
Fail to run Cactus after updating to 2.8.0

#1327 BitaoQiu closed 6 months ago
2
"Cycle detected" error

#1326 rishipurohit opened 6 months ago
1
Turn abpoa seeding off by default

#1325 glennhickey closed 6 months ago
0
Question about ancestral genome

#1324 Marh32 opened 6 months ago
2
update aws doc to use cactus release

#1323 glennhickey closed 6 months ago
0
Running Cactus on AWS - Memory Issue

#1322 tinaveit opened 6 months ago
1
GFA file with large amount of nodes & edges

#1321 SwenDiepstraten opened 6 months ago
2
ERROR: bad integers or strand in MAF (strand must be + for reference sequence)

#1320 chun-he-316 closed 5 months ago
11
Preprocess :start-end samtools-style path ranges in pangenome input

#1319 glennhickey closed 6 months ago
1
Indexing, coverage stats and TAF output options for cactus-hal2maf

#1318 glennhickey closed 6 months ago
0
Add Red prefilter

#1317 glennhickey closed 6 months ago
0
warning: 'XDG_RUNTIME_DIR is set to nonexistent directory'

#1316 evcurran opened 6 months ago
1
Maxcore did not work

#1315 gotouerina closed 4 months ago
6
Expand MAF export documentation

#1314 glennhickey closed 6 months ago
0
repeat masked genomes

#1313 eead-csic-compbio closed 6 months ago
1
is there a chromosome length limit?

#1312 eead-csic-compbio closed 6 months ago
2
Paths dropped in clipped MC graph

#1311 jooppenh opened 6 months ago
1
prep release v2.8.0

#1310 glennhickey closed 6 months ago
0
Fix bug introdued with new memory environment variables

#1309 glennhickey closed 6 months ago
0
Update README.md

#1308 benedictpaten closed 6 months ago
0
Soft masking

#1307 maggs-x opened 6 months ago
1
Failed join job due to memory request beyond maximum allowed

#1306 brettChapman opened 6 months ago
14
Mis-identification in CNS

#1305 bilibilij opened 6 months ago
2
question about Cactus input tree nwk

#1304 bighawkin closed 6 months ago
3
Cactus input tree

#1303 zhxh233 opened 6 months ago
2
Confusion in using cactus

#1302 Marh32 opened 7 months ago
1
auto-scale blast chunk size on slurm

#1301 glennhickey closed 7 months ago
0
Update taffy and vg to latest versions

#1300 glennhickey closed 7 months ago
0
OSError: [Errno 37] No locks available

#1299 ScottMastro closed 7 months ago
7
Clean out jobstore cruft in preprocessor

#1298 glennhickey closed 7 months ago
0
Any recommendation for pan-genome annotation?

#1297 lw78943 closed 6 months ago
4
[experimental] add RED as a preprocessor masking option

#1296 glennhickey closed 6 months ago
6
Explicitly erase some unneeded jobstore files

#1295 glennhickey closed 7 months ago
0
Interpreting mafStats

#1294 IsaacDiaz026 closed 7 months ago
1
prep release v2.7.2

#1293 glennhickey closed 7 months ago
0
default max memory to system limit; doc updates

#1292 glennhickey closed 7 months ago
0
Disable support for multi-way splits

#1291 glennhickey closed 7 months ago
0
Failed sanitize_fasta_header jobs with sqlite3.OperationalError: disk I/O error in Cactus Pangenome on WSL Ubuntu 20.04

#1290 whelixw opened 7 months ago
1
FileNotFoundError in minigraph_map_one

#1289 Han-Cao opened 7 months ago
5

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