| Previous changeset 4:093bb151a0a8 (2020-05-11) Next changeset 6:48e97429a749 (2024-07-08) |
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Commit message:
"planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/lumpy_sv commit e1bfc70a74f12ef8182d9afa0b3ab69d620fb3a8" |
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modified:
lumpy.xml pairend_distro.py |
| b |
| diff -r 093bb151a0a8 -r 6ae3a402b9af lumpy.xml --- a/lumpy.xml Mon May 11 19:51:38 2020 -0400 +++ b/lumpy.xml Sun May 24 18:48:46 2020 -0400 |
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| @@ -1,4 +1,4 @@ -<tool id="lumpy" name="lumpy-sv" version="1.2.1"> +<tool id="lumpy" name="lumpy-sv" version="1.2.2"> <description>find structural variants</description> <requirements> <requirement type="package" version="0.2.13">lumpy-sv</requirement> |
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| diff -r 093bb151a0a8 -r 6ae3a402b9af pairend_distro.py --- a/pairend_distro.py Mon May 11 19:51:38 2020 -0400 +++ b/pairend_distro.py Sun May 24 18:48:46 2020 -0400 |
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| @@ -81,7 +81,7 @@ min_elements = 1000 if len(L) < min_elements: sys.stderr.write("Warning: only %s elements in distribution (min: %s)\n" % - (len(L), min_elements)) + (str(len(L)), str(min_elements))) mean = "NA" stdev = "NA" @@ -94,8 +94,8 @@ L = L[L < upper_cutoff] new_len = len(L) removed = c - new_len - sys.stderr.write("Removed %d outliers with isize >= %d\n" % - (removed, upper_cutoff)) + sys.stderr.write("Removed %s outliers with isize >= %s\n" % + (str(removed), str(upper_cutoff))) c = new_len mean = np.mean(L) |