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VDBWRAIR
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pathdiscov
Pathogen Discover Pipeline
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Installation failed
#293
demis001
opened
4 years ago
1
pip's --download-cache deprecated
#292
averagehat
opened
7 years ago
0
host_map counts unmapped only if both mates unmapped
#291
averagehat
opened
8 years ago
0
add drop_mapped step
#290
averagehat
closed
8 years ago
1
Contigsummary
#289
averagehat
opened
8 years ago
0
Perl versioning for get_unblast_reads.pl
#288
bpfeffer
opened
8 years ago
0
make_summary: Add sequence column
#287
necrolyte2
opened
8 years ago
1
Host map: ensure paired results
#286
necrolyte2
opened
8 years ago
10
v4.3.0
#285
averagehat
closed
8 years ago
0
Ensure pipeline version is put into output
#284
necrolyte2
opened
9 years ago
2
blastx won't run
#283
necrolyte2
closed
8 years ago
3
getorf bug with fasta files
#282
necrolyte2
opened
9 years ago
1
Investigate diamond's default options that we have set
#281
necrolyte2
closed
8 years ago
3
Parallel blast
#280
necrolyte2
opened
9 years ago
6
Replace (optionally) blastx with Seqr
#279
averagehat
opened
9 years ago
3
make_summary error: IndexError: list index out of range
#278
mmelendrez
closed
9 years ago
3
linecount slow
#277
necrolyte2
opened
9 years ago
2
Replace run_standard.pl and maybe also Ruffus with Makefile
#276
averagehat
closed
8 years ago
1
Smarter top.blast selection?
#275
averagehat
opened
9 years ago
2
cutadapt says cython missing during install
#274
necrolyte2
closed
9 years ago
2
make_summary reformat
#273
necrolyte2
opened
9 years ago
0
make_summary clarifications
#272
necrolyte2
closed
9 years ago
0
orf_filter not calling linecount correctly for fasta files
#271
necrolyte2
closed
9 years ago
0
Closing #265
#270
necrolyte2
closed
9 years ago
0
Each stage should check that it completed
#269
necrolyte2
opened
9 years ago
3
pip download cache deprecation
#268
necrolyte2
closed
8 years ago
1
modify install.rst to state that virtualenv can be installed anywhere now
#267
necrolyte2
closed
9 years ago
0
virtualenv setup in install.rst
#266
necrolyte2
closed
9 years ago
0
Make it so stages can be run independently
#265
necrolyte2
closed
9 years ago
1
symlink stage error in some cases
#264
necrolyte2
closed
9 years ago
2
pip tries to install bio_pieces regardless if it is installed
#263
necrolyte2
closed
9 years ago
0
Closes #261, closes #259, #258. Related to #243
#262
necrolyte2
closed
9 years ago
0
make_summary broken
#261
necrolyte2
closed
9 years ago
0
pipeline not correctly honoring --cpu/-c option?
#260
necrolyte2
closed
9 years ago
1
diamond, bowtie, snap missing during setup
#259
necrolyte2
closed
9 years ago
1
Human DNA instruction order deletes files
#258
averagehat
closed
9 years ago
0
Migrate parse_contigs to bio_pieces
#257
necrolyte2
closed
9 years ago
3
Make parse_contigs in ray2_assembly optional
#256
necrolyte2
closed
9 years ago
1
make_summary feature requests
#255
necrolyte2
closed
9 years ago
3
Diamond Output Question
#254
bpfeffer
closed
9 years ago
27
Remove python 2.7 specific code
#253
necrolyte2
closed
9 years ago
1
Closes #251
#252
necrolyte2
closed
9 years ago
0
Verifydatabases Failure
#251
bpfeffer
closed
9 years ago
0
Error building documentation
#250
bpfeffer
closed
9 years ago
21
Issue running pipeline
#249
necrolyte2
closed
9 years ago
2
Tyghe v421 fixes
#248
necrolyte2
closed
9 years ago
0
snap index documentation
#247
necrolyte2
closed
9 years ago
1
Problem with prinseq
#246
demis001
closed
9 years ago
0
Corrected the snap version 0.15 #244
#245
demis001
closed
9 years ago
0
snap failed
#244
demis001
closed
9 years ago
1
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