Release FDSTools v1.1.1 (TSSV 1.1.1)

Fixing a bug (introduced in v1.1.0) in the TSSV report output file.

README.rst

@@ -29,6 +29,9 @@ Alternatively, FDSTools can be installed by running:
 
 FDSTools Changelog
 ------------------
+v1.1.1
+    - Includes TSSV v1.1.1
+
 v1.1.0
     - Allele name heuristics: don't produce insertions at the end of the prefix
       or at the beginning of the suffix; just include extra STR blocks.
@@ -473,6 +476,11 @@ v1.0.0
 
 TSSV
 ~~~~
+v1.1.1
+    - Fixed incorrect calculation of tLeft, fLeft, rLeft, tRight and fRight
+      columns in the report output file when -T/--num-threads was set to 2 or
+      higher. The primary output of was unaffected.
+
 v1.1.0
     - Added option '-T/--num-threads' (default: 1), which controls the number
       of worker threads TSSV may spawn to run the analysis in parallel.

fdstools/__init__.py

@@ -24,7 +24,7 @@ including tools for characterisation and filtering of PCR stutter artefacts and
 other systemic noise, and for automatic detection of the alleles in a sample.
 """
 
-__version_info__ = ('1', '1', '0')
+__version_info__ = ('1', '1', '1')
 __version__ = '.'.join(__version_info__)
 usage = __doc__.split("\n\n\n")
 

fdstools/tools/tssv.py

@@ -47,7 +47,7 @@ from ..lib import pos_int_arg, add_input_output_args, get_input_output_files,\
                   add_sequence_format_args, reverse_complement, PAT_SEQ_RAW,\
                   get_column_ids, ensure_sequence_format
 
-__version__ = "1.1.0"
+__version__ = "1.1.1"
 
 
 # Default values for parameters are specified below.
@@ -231,10 +231,10 @@ def process_file_parallel(infile, tssv_library, indel_score, workers):
 
         for marker, matches, seq1, seq2 in results:
             recognised |= matches
-            counters[marker]["fLeft"] += matches
-            counters[marker]["fRight"] += (matches >> 1)
-            counters[marker]["rLeft"] += (matches >> 2)
-            counters[marker]["rRight"] += (matches >> 3)
+            counters[marker]["fLeft"] += matches & 1
+            counters[marker]["fRight"] += matches >> 1 & 1
+            counters[marker]["rLeft"] += matches >> 2 & 1
+            counters[marker]["rRight"] += matches >> 3 & 1
 
             # Search in the forward strand.
             if seq1 is not None: