From 2958f7c0af1b12255b39d3904302ad6ca6f52714 Mon Sep 17 00:00:00 2001 From: Ryan Herbert Date: Tue, 23 Feb 2016 15:08:57 +0100 Subject: [PATCH] task.py added fuse --- server/web2py/applications/vidjil/models/task.py | 8 +++++++- 1 file changed, 7 insertions(+), 1 deletion(-) diff --git a/server/web2py/applications/vidjil/models/task.py b/server/web2py/applications/vidjil/models/task.py index 75454259a..52bbac1a4 100755 --- a/server/web2py/applications/vidjil/models/task.py +++ b/server/web2py/applications/vidjil/models/task.py @@ -200,7 +200,7 @@ def run_vidjil(id_file, id_config, id_data, id_fuse, grep_reads, return "SUCCESS" -def run_mixcr(id_file, id_config, id_data, clean_before=False, clean_after=False): +def run_mixcr(id_file, id_config, id_data, id_fuse, clean_before=False, clean_after=False): from subprocess import Popen, PIPE, STDOUT, os import time @@ -266,6 +266,12 @@ def run_mixcr(id_file, id_config, id_data, clean_before=False, clean_after=False res = {"message": "[%s] c%s: MiXCR finished - %s" % (id_data, id_config, out_folder)} log.info(res) + for row in db(db.sample_set_membership.sequence_file_id==id_file).select() : + sample_set_id = row.sample_set_id + print row.sample_set_id + run_fuse(id_file, id_config, id_data, id_fuse, sample_set_id, clean_before = False) + + return "SUCCESS" def run_copy(id_file, id_config, id_data, id_fuse, clean_before=False, clean_after=False): -- GitLab