# HG changeset patch # User iuc # Date 1582132096 0 # Node ID e8ca9af08774fd2795cfae2b984051e68a561c26 # Parent 1f75d46e55f52594121e81c9c6578b8c85c9dc50 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/galaxy_sequence_utils/tabular_to_fastq commit d4ced60a941c4c4a2fe95de9c09a10086810b387" diff -r 1f75d46e55f5 -r e8ca9af08774 macros.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/macros.xml Wed Feb 19 17:08:16 2020 +0000 @@ -0,0 +1,9 @@ + + 1.1.5 + + + galaxy_sequence_utils + + + > + diff -r 1f75d46e55f5 -r e8ca9af08774 tabular_to_fastq.py --- a/tabular_to_fastq.py Fri Nov 01 13:22:35 2019 -0400 +++ b/tabular_to_fastq.py Wed Feb 19 17:08:16 2020 +0000 @@ -14,15 +14,14 @@ max_col = max(identifier_col, sequence_col, quality_col) num_reads = None skipped_lines = 0 - out = open(output_filename, 'w') - for num_reads, line in enumerate(open(input_filename)): - fields = line.rstrip('\n\r').split('\t') - if len(fields) > max_col: - out.write("@%s\n%s\n+\n%s\n" % (fields[identifier_col], fields[sequence_col], fields[quality_col])) - else: - skipped_lines += 1 + with open(output_filename, 'w') as out: + for num_reads, line in enumerate(open(input_filename)): + fields = line.rstrip('\n\r').split('\t') + if len(fields) > max_col: + out.write("@%s\n%s\n+\n%s\n" % (fields[identifier_col], fields[sequence_col], fields[quality_col])) + else: + skipped_lines += 1 - out.close() if num_reads is None: print("Input was empty.") else: diff -r 1f75d46e55f5 -r e8ca9af08774 tabular_to_fastq.xml --- a/tabular_to_fastq.xml Fri Nov 01 13:22:35 2019 -0400 +++ b/tabular_to_fastq.xml Wed Feb 19 17:08:16 2020 +0000 @@ -1,4 +1,4 @@ - + converter topic_0622 @@ -6,6 +6,12 @@ operation_3434 + + macros.xml + + + python +