Commit e099a166 authored by MercierC's avatar MercierC

small fixes

parent 847c9c81
......@@ -430,7 +430,7 @@ def run(config):
if pb is not None:
pb(i, force=True)
print("", file=sys.stderr)
logger("info", "Imported %d entries", i)
logger("info", "Imported %d entries", len(view))
# Save command config in View and DMS comments
command_line = " ".join(sys.argv[1:])
......
......@@ -450,7 +450,7 @@ cdef tuple annotate(sequences, infos, no_tags, verbose=False):
sequences[1] = sequences[1][reversematch[1][2]:]
if not directmatch[0].forward:
sequences[1] = sequences[1].reverse_complement
sequences[0][REVERSE_SEQUENCE_COLUMN] = sequences[1].seq # used by alignpairedend tool
sequences[0][REVERSE_SEQUENCE_COLUMN] = sequences[1].seq # used by alignpairedend tool
sequences[0][REVERSE_QUALITY_COLUMN] = sequences[1].quality # used by alignpairedend tool
else:
sequences[0] = sequences[0][reversematch[1][2]:]
......
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