Merge pull request #1 from bigbio/dev

small changes.

.gitignore

@@ -12,4 +12,9 @@ testing*
 /build/
 results*/
 venv/
+node_modules
+conversion_inputs
+debug_dir
+test_out
+
 lint_log.txt

bin/diann_convert.py

@@ -52,7 +52,7 @@ def convert(ctx, folder, exp_design, dia_params, diann_version, charge, missed_c
 
     :param folder: DiannConvert specifies the folder where the required file resides. The folder contains
         the DiaNN main report, protein matrix, precursor matrix, experimental design file, protein sequence
-        FASTA file, version file of DiaNN and mzml_info TSVs
+        FASTA file, version file of DiaNN and ms_info TSVs
     :type folder: str
     :param dia_params: A list contains DIA parameters
     :type dia_params: list
@@ -252,8 +252,8 @@ def fasta(self) -> os.PathLike:
             return self.find_suffix_file(".fa")
 
     @property
-    def mzml_info(self) -> os.PathLike:
-        return self.find_suffix_file("mzml_info.tsv")
+    def ms_info(self) -> os.PathLike:
+        return self.find_suffix_file("ms_info.tsv")
 
     @property
     def validate_diann_version(self) -> str:
@@ -826,7 +826,7 @@ def mztab_PSH(report, folder, database):
     :type report: pandas.core.frame.DataFrame
     :param folder: DiannConvert specifies the folder where the required file resides. The folder contains
         the DiaNN main report, protein matrix, precursor matrix, experimental design file, protein sequence
-        FASTA file, version file of DiaNN and mzml_info TSVs
+        FASTA file, version file of DiaNN and ms_info TSVs
     :type folder: str
     :param database: Path to fasta file
     :type database: str
@@ -837,7 +837,7 @@ def mztab_PSH(report, folder, database):
 
     def __find_info(dir, n):
         # This line matches n="220101_myfile", folder="." to
-        # "myfolder/220101_myfile_mzml_info.tsv"
+        # "myfolder/220101_myfile_ms_info.tsv"
         files = list(Path(dir).glob(f"*{n}*_info.tsv"))
         # Check that it matches one and only one file
         if not files: