Commit 521317d5 authored by Mathieu Giraud's avatar Mathieu Giraud
Browse files

benchmark-releases.py: use different germlines for installed releases

parent 9452d060
......@@ -6,6 +6,8 @@ BIN = DEST + 'bin/'
GERM = DEST + 'germline/'
RUN = DEST + 'run/'
GERM_VAR = '${GERMLINE}'
OUT = 'benchmark.log'
CURRENT = 'HEAD'
......@@ -19,8 +21,8 @@ LIMIT1e4 = '-x 10000 '
LIMIT1e3 = '-x 1000 '
LIMIT1e2 = '-x 100 '
MULTI = '-g ../../germline/homo-sapiens.g '
IGH = '-g ../../germline/homo-sapiens.g:IGH '
MULTI = '-g ' + GERM_VAR + '/homo-sapiens.g '
IGH = '-g ' + GERM_VAR + '/homo-sapiens.g:IGH '
L4 = '../../demo/LIL-L4.fastq.gz '
S22 = '../../demo/Stanford_S22.fasta '
......@@ -229,6 +231,7 @@ def run_all(tag, args, retries):
log = RUN + '/%s-%s.log' % (tag, release)
cmd = '%s/%s ' % (BIN, release) + convert(args, release)
cmd = cmd.replace(GERM_VAR, '%s/%s' % (GERM, release))
try:
benchs = []
for i in range(retries) :
......
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