fixed

bigbio · Mar 2, 2024 · a8576db · a8576db
1 parent 6d6626f
commit a8576db
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Showing 2 changed files with 1 addition and 3 deletions.
diff --git a/bin/mzml_statistics.py b/bin/mzml_statistics.py
@@ -61,7 +61,7 @@ def parse_mzml(file_name: str, file_columns: list, id_only: bool = False):
                 info_list = [id_, MSLevel, None, None, None, None, rt, None, acquisition_datetime]
 
             if id_only and MSLevel == 2:
-                psm_part_info.append([re.findall(r"scan=(\d+)", id_)[0], MSLevel, mz_array, intensity_array])
+                psm_part_info.append([re.findall(r"[scan|spectrum]=(\d+)", id_)[0], MSLevel, mz_array, intensity_array])
             info.append(info_list)
 
         if id_only and len(psm_part_info) > 0:

diff --git a/modules/local/extract_psm/meta.yml b/modules/local/extract_psm/meta.yml
@@ -21,8 +21,6 @@ input:
   - meta:
       type: map
       description: Groovy Map containing sample information
-
-
 output:
   - psm_info:
       type: file