From ae44d8624b775131ae6d905c95219582551b34bb Mon Sep 17 00:00:00 2001 From: Martin Hunt Date: Fri, 8 Apr 2016 11:58:46 +0100 Subject: [PATCH 1/2] Write not found reads filenames to stderr --- ariba/tasks/run.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/ariba/tasks/run.py b/ariba/tasks/run.py index 1e6de9af..f108a047 100644 --- a/ariba/tasks/run.py +++ b/ariba/tasks/run.py @@ -100,7 +100,7 @@ def run(): if len(reads_not_found): print('\nThe following reads file(s) were not found:', file=sys.stderr) - print(*reads_not_found, sep='\n') + print(*reads_not_found, sep='\n', file=sys.stderr) print('Cannot continue', file=sys.stderr) sys.exit(1) From 7b665d11c8627d335e4140d1359f42e69548fb5f Mon Sep 17 00:00:00 2001 From: Martin Hunt Date: Fri, 8 Apr 2016 12:03:02 +0100 Subject: [PATCH 2/2] Typo in how ariba was run --- ariba/clusters.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/ariba/clusters.py b/ariba/clusters.py index d78849fb..a42cfcae 100644 --- a/ariba/clusters.py +++ b/ariba/clusters.py @@ -387,7 +387,7 @@ def _clean(self): def write_versions_file(self, original_dir): with open('version_info.txt', 'w') as f: print('ARIBA version', common.version, 'run with this command:', file=f) - print(' '.join(sys.argv), file=f) + print(' '.join([sys.argv[0]] + ['run'] + sys.argv[1:]), file=f) print('from this directory:', original_dir, file=f) print(file=f) print('Versions of dependencies:\n', file=f)