VG IDS¶
Manipulate id space of input graphs. NOTE Use bio/vg/merge for making a joint id space for graphs.
Example¶
This wrapper can be used in the following way:
rule ids:
input:
vgs="c.vg"
output:
mod="graph/c_mod.vg"
log:
"logs/vg/ids/c.log"
wrapper:
"v1.12.2/bio/vg/ids"
Note that input, output and log file paths can be chosen freely.
When running with
snakemake --use-conda
the software dependencies will be automatically deployed into an isolated environment before execution.
Software dependencies¶
vg==1.27.0
Authors¶
- Ali Ghaffaari
Code¶
__author__ = "Ali Ghaffaari"
__copyright__ = "Copyright 2017, Ali Ghaffaari"
__email__ = "ghaffari@mpi-inf.mpg.de"
__license__ = "MIT"
from snakemake.shell import shell
log = snakemake.log_fmt_shell(stdout=False)
shell(
"(vg ids {snakemake.params} {snakemake.input.vgs}"
" > {snakemake.output.mod}) {log}"
)