# HG changeset patch
# User peterjc
# Date 1527081313 14400
# Node ID 3b0a14722175c9124be6754710a5aba6af947f96
# Parent  8e1a90917fa79ec6be8fbe8f7aa3e381e78b8909
v0.0.14 - Script works on Python 2 and 3 (fixed output file mode)

diff -r 8e1a90917fa7 -r 3b0a14722175 tools/seq_select_by_id/README.rst
--- a/tools/seq_select_by_id/README.rst	Wed May 17 09:23:03 2017 -0400
+++ b/tools/seq_select_by_id/README.rst	Wed May 23 09:15:13 2018 -0400
@@ -90,6 +90,7 @@
         - Depends on Biopython 1.67 via legacy Tool Shed package or bioconda.
         - Python 3 compatible print function.
 v0.0.13 - Python 3 compatible exception handling.
+v0.0.14 - Script works on Python 2 and 3 (fixed output file mode).
 ======= ======================================================================
 
 
@@ -118,7 +119,7 @@
 
     $ planemo shed_upload --tar_only tools/seq_select_by_id/
     ...
-    $ tar -tzf shed_upload.tar.gz 
+    $ tar -tzf shed_upload.tar.gz
     test-data/k12_hypothetical.fasta
     test-data/k12_hypothetical.tabular
     test-data/k12_hypothetical_alt.tabular
diff -r 8e1a90917fa7 -r 3b0a14722175 tools/seq_select_by_id/seq_select_by_id.py
--- a/tools/seq_select_by_id/seq_select_by_id.py	Wed May 17 09:23:03 2017 -0400
+++ b/tools/seq_select_by_id/seq_select_by_id.py	Wed May 23 09:15:13 2018 -0400
@@ -26,7 +26,7 @@
 import sys
 
 if "-v" in sys.argv or "--version" in sys.argv:
-    print("v0.0.13")
+    print("v0.0.14")
     sys.exit(0)
 
 # Parse Command Line
@@ -128,7 +128,7 @@
 else:
     # Avoid overhead of parsing into SeqRecord objects,
     # just re-use the original formatting from the input file.
-    out_handle = open(out_file, "w")
+    out_handle = open(out_file, "wb")
     count = 0
     for name in parse_ids(tabular_file, column):
         try:
diff -r 8e1a90917fa7 -r 3b0a14722175 tools/seq_select_by_id/seq_select_by_id.xml
--- a/tools/seq_select_by_id/seq_select_by_id.xml	Wed May 17 09:23:03 2017 -0400
+++ b/tools/seq_select_by_id/seq_select_by_id.xml	Wed May 23 09:15:13 2018 -0400
@@ -1,4 +1,4 @@
-<tool id="seq_select_by_id" name="Select sequences by ID" version="0.0.13">
+<tool id="seq_select_by_id" name="Select sequences by ID" version="0.0.14">
     <description>from a tabular file</description>
     <requirements>
         <requirement type="package" version="1.67">biopython</requirement>
@@ -12,7 +12,7 @@
     <inputs>
         <param name="input_file" type="data" format="fasta,qual,fastq,sff" label="Sequence file to select from" help="FASTA, QUAL, FASTQ, or SFF format." />
         <param name="input_tabular" type="data" format="tabular" label="Tabular file containing sequence identifiers"/>
-        <param name="column" type="data_column" data_ref="input_tabular" multiple="False" numerical="False" label="Column containing sequence identifiers"/>
+        <param name="column" type="data_column" data_ref="input_tabular" multiple="false" numerical="false" label="Column containing sequence identifiers"/>
     </inputs>
     <outputs>
         <data name="output_file" format_source="input_file" metadata_source="input_file" label="Selected sequences from $input_file.name"/>