a-ludi dentist issues - Githubissues

a-ludi / dentist

Close assembly gaps using long-reads at high accuracy.

https://a-ludi.github.io/dentist/

MIT License

47 stars 6 forks source link

issues

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Example fails with Colon expected after keyword global_conda. (Snakefile, line 103)

#43 faulk-lab closed 5 months ago
4
Dentist parameters

#42 aureliendejode opened 1 year ago
3
Rerun after stop due to time limit

#41 aureliendejode closed 1 year ago
4
Error: File stdout.fasta, Line 1: First header in fasta file is missing

#40 aureliendejode closed 1 year ago
2
one of the commands exited with non-zero exit code; note that snakemake uses bash strict mode!

#39 plnspineda closed 1 year ago
3
Error in rule validate_regions_block

#38 HouYan20 closed 1 year ago
2
No joined contigs with greedy configuration

#37 YannDussert closed 1 year ago
2
`subprocess.run` got an unexpected keyword argument 'text'

#36 Duda5 closed 1 year ago
4
Can gaps be filled with just extension reads?

#35 lautimothy closed 1 year ago
5
Conda-install-error

#34 XingnuoLi1996 opened 2 years ago
9
no gap-filling in "scaffold" mode?

#33 schraderL opened 2 years ago
11
example failing due to computeintrinsicqv

#32 schraderL closed 2 years ago
3
Could not create pipe to check startup of child (Too many open files)

#31 lucabianco78 opened 2 years ago
2
Singularity image is lacking a Python installation

#30 a-ludi closed 2 years ago
4
rule mask_self fails on Docker container

#29 lucasnell opened 2 years ago
3
Math error in Snakefile

#28 cbirbes closed 2 years ago
2
Pacbio header line format error

#27 JonEilers closed 2 years ago
16
md5checksum differences between nodes

#26 diego-rt closed 3 years ago
9
MissingOutputException error

#25 shri1984 opened 3 years ago
1
Failed to run with test data set: TypeError in line 45 of Snakefile

#24 davidjstudholme opened 3 years ago
6
Missing Snakefile from example test dataset

#23 davidjstudholme closed 3 years ago
8
Setting dentist parameters

#22 Adamtaranto opened 3 years ago
21
Broken symlinks and/or missing files from data test set

#21 davidjstudholme closed 3 years ago
3
Adding haplotigs back for gap filling?

#20 rotoke closed 3 years ago
3
Missing half of output files from test run

#19 rotoke closed 3 years ago
19
Bump nokogiri from 1.11.3 to 1.11.5 in /docs

#18 dependabot[bot] closed 3 years ago
3
Error in rule `collect`

#17 muffato closed 3 years ago
10
Rule `ref_vs_reads_alignment_block` keeps failing

#16 a-ludi closed 3 years ago
7
FATAL: Unable to handle docker://aludi/dentist:v1.0.1 uri

#15 marcelauliano closed 3 years ago
6
DALIGNER version

#14 EdHarry closed 3 years ago
4
md5checksum shows example dataset analysis fails

#13 RishiDeKayne opened 3 years ago
12
Getting started

#12 A-J-F-Mackintosh closed 3 years ago
6
Singularity issue

#11 DRL closed 3 years ago
3
'Wildcards' object has no attribute 'memory'

#10 cassondranewman closed 3 years ago
2
Questions about Input Reads

#9 cassondranewman closed 3 years ago
6
dentist collect v1.0.0-beta.3 requires DAScover from DASCRUBBER which failed to compile.

#8 BradleyRan closed 4 years ago
2
Damapper command fails

#7 olekto closed 3 years ago
7
File locking blocks indefinitely in `writePileUps`

#6 a-ludi closed 4 years ago
15
LAsort fails in dailgner2.0

#5 a-ludi closed 4 years ago
2
Syntax issue in snakemake

#4 harish0201 closed 4 years ago
3
Snakefile calls to LAcheck in shell sections fail

#3 BradleyRan closed 4 years ago
6
Snakefile: Line 334, dbsplit doesn't recognize the "-T" option

#2 BradleyRan closed 4 years ago
1
Nanopore reads

#1 mccartneya90 closed 4 years ago
3