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feat: support branches (e.g. plants) in ensembl wrappers for sequence…
…, annotation, and variation download (#546)
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Original file line number | Diff line number | Diff line change |
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@@ -1,28 +1,30 @@ | ||
rule get_genome: | ||
output: | ||
"refs/genome.fasta" | ||
"refs/genome.fasta", | ||
params: | ||
species="saccharomyces_cerevisiae", | ||
datatype="dna", | ||
build="R64-1-1", | ||
release="98" | ||
release="98", | ||
log: | ||
"logs/get_genome.log" | ||
"logs/get_genome.log", | ||
cache: True # save space and time with between workflow caching (see docs) | ||
wrapper: | ||
"master/bio/reference/ensembl-sequence" | ||
|
||
|
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rule get_chromosome: | ||
output: | ||
"refs/chr1.fasta" | ||
"refs/chr1.fasta", | ||
params: | ||
species="saccharomyces_cerevisiae", | ||
datatype="dna", | ||
build="R64-1-1", | ||
release="101", | ||
chromosome="I" | ||
chromosome="I", # optional: restrict to chromosome | ||
# branch="plants", # optional: specify branch | ||
log: | ||
"logs/get_genome.log" | ||
"logs/get_genome.log", | ||
cache: True # save space and time with between workflow caching (see docs) | ||
wrapper: | ||
"master/bio/reference/ensembl-sequence" |
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