Merge pull request #3 from Australian-Structural-Biology-Computing/up…

…date-fasta-creation

fix(fasta): Removed space from FASTA header file

create_samplesheet.py

@@ -36,11 +36,18 @@ def read_fasta(fp, read_data=False, single_line=True):
     lines = fasta_fp.readlines()
     logger.debug(f"Fasta content {lines}")
 
+    temp_sample_object = None
+
     for fasta_line in lines:
         if re.search("^\>( ?).*$", fasta_line):
-            fasta_samples.append(Sample(fasta_line[1:].strip(), fp, None))
+            # This is to add support for fixed-width fasta files
+            if temp_sample_object is not None:
+                fasta_samples.append(temp_sample_object)
+            temp_sample_object = Sample(fasta_line[1:].strip(), fp, None)
             if single_line:
                 break
+        else:
+            temp_sample_object.data += fasta_line.strip()
 
     fasta_fp.close()
     logger.debug(f"Number of samples in {fp}: {len(fasta_samples)}")
@@ -51,7 +58,7 @@ def file_name(sample_id, prefix='manual_entry', suffix='af2', delim='-', extensi
     return ''.join([prefix, delim, sample_id, delim, suffix, '.', extension]) 
 
 def make_fasta(aa_seq, sample_name, fp, header='>'):
-    fp.write(f"{header} {sample_name}\n{aa_seq}")
+    fp.write(f"{header}{sample_name}\n{aa_seq}")
     fp.flush()
 
 def create_csv(data, header_seq, header_fasta, fp):