| Previous changeset 12:aa5e2c64dff8 (2022-10-22) Next changeset 14:5150d641d515 (2023-04-06) |
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Commit message:
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/small_rna_signatures commit bc672cf9d5fe9c1f7eaf02abdc906cf2c1763668 |
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modified:
overlapping_reads.py overlapping_reads.xml signature.xml |
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| diff -r aa5e2c64dff8 -r 124f404b0fe7 overlapping_reads.py --- a/overlapping_reads.py Sat Oct 22 23:49:52 2022 +0000 +++ b/overlapping_reads.py Sat Feb 25 09:54:28 2023 +0000 |
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| @@ -90,12 +90,10 @@ target_range = self.target_range uppers = [seq for seq in uppers if (len(seq) in query_range or len(seq) in target_range)] - print(uppers) uppers_expanded = [] for seq in uppers: expand = [seq for i in range(self.readdic[seq])] uppers_expanded.extend(expand) - print(uppers_expanded) uppers = uppers_expanded lowers = [seq for seq in lowers if (len(seq) in query_range or len(seq) in target_range)] @@ -123,7 +121,6 @@ stringresult = [] header_template = '>%s|coord=%s|strand %s|size=%s|nreads=%s\n%s\n' total_pairs = 0 - print('Chromosome\tNbre of pairs') for chrom in sorted(self.chromosomes): number_pairs = 0 for pos in self.all_query_positions[chrom]: @@ -149,9 +146,6 @@ len(downread), self.readdic[downread], self.revcomp(downread))) stringresult.extend(sorted(set(stringbuffer))) - print('%s\t%s' % (chrom, number_pairs)) - print('Total nbre of pairs that can be simultaneously formed\t%s' - % total_pairs) F.write(''.join(stringresult)) def revcomp(self, sequence): |
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| diff -r aa5e2c64dff8 -r 124f404b0fe7 overlapping_reads.xml --- a/overlapping_reads.xml Sat Oct 22 23:49:52 2022 +0000 +++ b/overlapping_reads.xml Sat Feb 25 09:54:28 2023 +0000 |
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| @@ -1,4 +1,4 @@ -<tool id="overlapping_reads" name="Get overlapping reads" version="3.4.1"> +<tool id="overlapping_reads" name="Get overlapping reads" version="3.4.2"> <description /> <requirements> <requirement type="package" version="0.18.0">pysam</requirement> |
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| diff -r aa5e2c64dff8 -r 124f404b0fe7 signature.xml --- a/signature.xml Sat Oct 22 23:49:52 2022 +0000 +++ b/signature.xml Sat Feb 25 09:54:28 2023 +0000 |
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| @@ -1,4 +1,4 @@ -<tool id="signature" name="Small RNA Signatures" version="3.4.1>"> +<tool id="signature" name="Small RNA Signatures" version="3.4.2>"> <description /> <requirements> <requirement type="package" version="1.23.4">numpy</requirement> |