Apply suggestions from code review

Co-authored-by: nitin-ebi <79518737+nitin-ebi@users.noreply.github.com>
Co-authored-by: April Shen <april.tuesday@gmail.com>

README.md

@@ -12,8 +12,8 @@ There are two ways of specifying the VCF files and associated assembly
 
 ### Using  `--vcf_files` and `--assembly_fasta`
 
-This allows you to provide multiple VCF file to validate and a single genome file associated. 
-The VCF file and genome associated must use the same chromosome naming convention 
+This allows you to provide multiple VCF files to validate and a single associated genome file.
+The VCF files and the associated genome file must use the same chromosome naming convention 
 
 ### Using  `--vcf_files_mapping`
 

bin/eva-sub-cli.py

@@ -16,7 +16,7 @@ def validate_command_line_arguments(args, argparser):
         sys.exit(1)
 
     if (args.vcf_files and not args.assembly_fasta) or (not args.vcf_files and args.assembly_fasta):
-        print("When using --vcf_files and --assembly_fasta, both needs to be specified")
+        print("When using --vcf_files and --assembly_fasta, both need to be specified")
         argparser.print_usage()
         sys.exit(1)
 
@@ -35,16 +35,16 @@ def validate_command_line_arguments(args, argparser):
                                 'and submission info is/will be stored')
     vcf_group = argparser.add_argument_group(
         'Input VCF and assembly',
-        "Specify the VCF files and associated assembly with the following options. If you used different assembly "
+        "Specify the VCF files and associated assembly with the following options. If you used different assemblies "
         "for different VCF files then use --vcf_file_mapping"
     )
-    vcf_group.add_argument('--vcf_files', nargs='+', help="One or several vcf file to validate")
+    vcf_group.add_argument('--vcf_files', nargs='+', help="One or several vcf files to validate")
     vcf_group.add_argument('--assembly_fasta',
-                           help="The fasta file containing the reference genome from which the variant were derived")
+                           help="The fasta file containing the reference genome from which the variants were derived")
     vcf_group.add_argument("--vcf_files_mapping",
                            help="csv file with the mappings for vcf files, fasta and assembly report")
 
-    metadata_group = argparser.add_argument_group('Metadata', 'Specify the metadata in a spreadsheet of in a JSON file')
+    metadata_group = argparser.add_argument_group('Metadata', 'Specify the metadata in a spreadsheet or in a JSON file')
     metadata_group = metadata_group.add_mutually_exclusive_group(required=True)
     metadata_group.add_argument("--metadata_json",
                                help="Json file that describe the project, analysis, samples and files")