Merge pull request #44 from uclahs-cds/abesh-handle-file-types

Add filetype check for unsupported cases

CHANGELOG.md

@@ -21,6 +21,9 @@ This project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.htm
 - Single source package version from \_\_init__.py
 - Use `pysam` instead of `samtools` in bam file validation.
 
+### Fixed
+- Add handling for valid file types whose validation is not yet implemented.
+
 ---
 
 ## [2.1.6] - 2021-10-18

validate/__main__.py

@@ -105,13 +105,16 @@ def fastq_case():
         if file_extension in ('.fastq', '.fq'):
             warnings.warn('Warning: fastq or fq file is not zipped')
 
+    def unsupported_case():
+        raise TypeError('File type not yet supported by PipeVal.')
+
     file_type_switcher ={
         'file-bam': bam_case,
         'file-vcf': vcf_case,
         'file-fastq': fastq_case
     }
 
-    file_type_switcher[file_type]()
+    file_type_switcher.get(file_type, unsupported_case)()
 
     return True