openvax
diff --git a/‎lint.sh
Lines changed: 2 additions & 2 deletions b/‎lint.sh
Lines changed: 2 additions & 2 deletions
diff --git a/‎test/__init__.py renamed to ‎tests/__init__.py b/‎test/__init__.py renamed to ‎tests/__init__.py
diff --git a/‎test/benchmark_vcf_load.py renamed to ‎tests/benchmark_vcf_load.py b/‎test/benchmark_vcf_load.py renamed to ‎tests/benchmark_vcf_load.py
diff --git a/‎test/common.py renamed to ‎tests/common.py b/‎test/common.py renamed to ‎tests/common.py
diff --git a/‎test/data.py renamed to ‎tests/data.py b/‎test/data.py renamed to ‎tests/data.py
diff --git a/‎test/data/dbnsfp_validation_set.csv renamed to ‎tests/data/dbnsfp_validation_set.csv b/‎test/data/dbnsfp_validation_set.csv renamed to ‎tests/data/dbnsfp_validation_set.csv
diff --git a/‎test/data/different-samples.1.vcf renamed to ‎tests/data/different-samples.1.vcf b/‎test/data/different-samples.1.vcf renamed to ‎tests/data/different-samples.1.vcf
diff --git a/‎test/data/different-samples.2.vcf renamed to ‎tests/data/different-samples.2.vcf b/‎test/data/different-samples.2.vcf renamed to ‎tests/data/different-samples.2.vcf
diff --git a/‎test/data/duplicate-id.1.vcf renamed to ‎tests/data/duplicate-id.1.vcf b/‎test/data/duplicate-id.1.vcf renamed to ‎tests/data/duplicate-id.1.vcf
diff --git a/‎test/data/duplicate-id.2.vcf renamed to ‎tests/data/duplicate-id.2.vcf b/‎test/data/duplicate-id.2.vcf renamed to ‎tests/data/duplicate-id.2.vcf
diff --git a/‎test/data/duplicates.maf renamed to ‎tests/data/duplicates.maf b/‎test/data/duplicates.maf renamed to ‎tests/data/duplicates.maf
diff --git a/‎test/data/duplicates.vcf renamed to ‎tests/data/duplicates.vcf b/‎test/data/duplicates.vcf renamed to ‎tests/data/duplicates.vcf
diff --git a/‎test/data/mouse_vcf_dbsnp_chr1_partial.vcf renamed to ‎tests/data/mouse_vcf_dbsnp_chr1_partial.vcf b/‎test/data/mouse_vcf_dbsnp_chr1_partial.vcf renamed to ‎tests/data/mouse_vcf_dbsnp_chr1_partial.vcf
diff --git a/‎test/data/multiallelic.vcf renamed to ‎tests/data/multiallelic.vcf b/‎test/data/multiallelic.vcf renamed to ‎tests/data/multiallelic.vcf
diff --git a/‎test/data/mutect-example-headerless.vcf renamed to ‎tests/data/mutect-example-headerless.vcf b/‎test/data/mutect-example-headerless.vcf renamed to ‎tests/data/mutect-example-headerless.vcf
diff --git a/‎test/data/mutect-example.vcf renamed to ‎tests/data/mutect-example.vcf b/‎test/data/mutect-example.vcf renamed to ‎tests/data/mutect-example.vcf
diff --git a/‎test/data/ov.wustle.subset5.maf renamed to ‎tests/data/ov.wustle.subset5.maf b/‎test/data/ov.wustle.subset5.maf renamed to ‎tests/data/ov.wustle.subset5.maf
diff --git a/‎test/data/same-samples.1.vcf renamed to ‎tests/data/same-samples.1.vcf b/‎test/data/same-samples.1.vcf renamed to ‎tests/data/same-samples.1.vcf
diff --git a/‎test/data/same-samples.2.vcf renamed to ‎tests/data/same-samples.2.vcf b/‎test/data/same-samples.2.vcf renamed to ‎tests/data/same-samples.2.vcf
diff --git a/‎test/data/simple.1.vcf renamed to ‎tests/data/simple.1.vcf b/‎test/data/simple.1.vcf renamed to ‎tests/data/simple.1.vcf
diff --git a/‎test/data/simple.2.vcf renamed to ‎tests/data/simple.2.vcf b/‎test/data/simple.2.vcf renamed to ‎tests/data/simple.2.vcf
diff --git a/‎test/data/somatic_hg19_14muts.space_in_sample_name.vcf renamed to ‎tests/data/somatic_hg19_14muts.space_in_sample_name.vcf b/‎test/data/somatic_hg19_14muts.space_in_sample_name.vcf renamed to ‎tests/data/somatic_hg19_14muts.space_in_sample_name.vcf
diff --git a/‎test/data/somatic_hg19_14muts.vcf renamed to ‎tests/data/somatic_hg19_14muts.vcf b/‎test/data/somatic_hg19_14muts.vcf renamed to ‎tests/data/somatic_hg19_14muts.vcf
diff --git a/‎test/data/somatic_hg19_14muts.vcf.gz renamed to ‎tests/data/somatic_hg19_14muts.vcf.gz b/‎test/data/somatic_hg19_14muts.vcf.gz renamed to ‎tests/data/somatic_hg19_14muts.vcf.gz
diff --git a/‎test/data/strelka-example.vcf renamed to ‎tests/data/strelka-example.vcf b/‎test/data/strelka-example.vcf renamed to ‎tests/data/strelka-example.vcf
diff --git a/‎test/data/tcga_ov.head.maf renamed to ‎tests/data/tcga_ov.head.maf b/‎test/data/tcga_ov.head.maf renamed to ‎tests/data/tcga_ov.head.maf
diff --git a/‎test/data/tcga_ov.head.xychr.maf renamed to ‎tests/data/tcga_ov.head.xychr.maf b/‎test/data/tcga_ov.head.xychr.maf renamed to ‎tests/data/tcga_ov.head.xychr.maf
diff --git a/‎test/test_cli_effects.py renamed to ‎tests/test_cli_effects.py b/‎test/test_cli_effects.py renamed to ‎tests/test_cli_effects.py
diff --git a/‎test/test_cli_genes.py renamed to ‎tests/test_cli_genes.py b/‎test/test_cli_genes.py renamed to ‎tests/test_cli_genes.py
diff --git a/‎test/test_collection_filtering.py renamed to ‎tests/test_collection_filtering.py b/‎test/test_collection_filtering.py renamed to ‎tests/test_collection_filtering.py
diff --git a/‎test/test_common.py renamed to ‎tests/test_common.py b/‎test/test_common.py renamed to ‎tests/test_common.py
diff --git a/‎test/test_cosmic_mutations.py renamed to ‎tests/test_cosmic_mutations.py b/‎test/test_cosmic_mutations.py renamed to ‎tests/test_cosmic_mutations.py
diff --git a/‎test/test_dbnsfp_validation.py renamed to ‎tests/test_dbnsfp_validation.py b/‎test/test_dbnsfp_validation.py renamed to ‎tests/test_dbnsfp_validation.py
diff --git a/‎test/test_effect_annotation_errors.py renamed to ‎tests/test_effect_annotation_errors.py b/‎test/test_effect_annotation_errors.py renamed to ‎tests/test_effect_annotation_errors.py
diff --git a/‎test/test_effect_classes.py renamed to ‎tests/test_effect_classes.py b/‎test/test_effect_classes.py renamed to ‎tests/test_effect_classes.py
diff --git a/‎test/test_effect_collection.py renamed to ‎tests/test_effect_collection.py b/‎test/test_effect_collection.py renamed to ‎tests/test_effect_collection.py
diff --git a/‎test/test_effect_collection_serialization.py renamed to ‎tests/test_effect_collection_serialization.py b/‎test/test_effect_collection_serialization.py renamed to ‎tests/test_effect_collection_serialization.py
diff --git a/‎test/test_effects_from_mutagenix_variants.py renamed to ‎tests/test_effects_from_mutagenix_variants.py b/‎test/test_effects_from_mutagenix_variants.py renamed to ‎tests/test_effects_from_mutagenix_variants.py
diff --git a/‎test/test_exonic_splice_site.py renamed to ‎tests/test_exonic_splice_site.py b/‎test/test_exonic_splice_site.py renamed to ‎tests/test_exonic_splice_site.py
diff --git a/‎test/test_frameshift_helpers.py renamed to ‎tests/test_frameshift_helpers.py b/‎test/test_frameshift_helpers.py renamed to ‎tests/test_frameshift_helpers.py
diff --git a/‎test/test_maf.py renamed to ‎tests/test_maf.py b/‎test/test_maf.py renamed to ‎tests/test_maf.py
diff --git a/‎test/test_mm10_klf6_frameshift.py renamed to ‎tests/test_mm10_klf6_frameshift.py b/‎test/test_mm10_klf6_frameshift.py renamed to ‎tests/test_mm10_klf6_frameshift.py
diff --git a/‎test/test_mouse.py renamed to ‎tests/test_mouse.py b/‎test/test_mouse.py renamed to ‎tests/test_mouse.py
diff --git a/‎test/test_mutate.py renamed to ‎tests/test_mutate.py b/‎test/test_mutate.py renamed to ‎tests/test_mutate.py
diff --git a/‎test/test_no_duplicate_variants.py renamed to ‎tests/test_no_duplicate_variants.py b/‎test/test_no_duplicate_variants.py renamed to ‎tests/test_no_duplicate_variants.py
diff --git a/‎test/test_problematic_variants.py renamed to ‎tests/test_problematic_variants.py b/‎test/test_problematic_variants.py renamed to ‎tests/test_problematic_variants.py
diff --git a/‎test/test_reference.py renamed to ‎tests/test_reference.py b/‎test/test_reference.py renamed to ‎tests/test_reference.py
diff --git a/‎test/test_string_helpers.py renamed to ‎tests/test_string_helpers.py b/‎test/test_string_helpers.py renamed to ‎tests/test_string_helpers.py
diff --git a/‎test/test_timings.py renamed to ‎tests/test_timings.py b/‎test/test_timings.py renamed to ‎tests/test_timings.py
diff --git a/‎test/test_variant.py renamed to ‎tests/test_variant.py b/‎test/test_variant.py renamed to ‎tests/test_variant.py
diff --git a/‎test/test_variant_collection.py renamed to ‎tests/test_variant_collection.py b/‎test/test_variant_collection.py renamed to ‎tests/test_variant_collection.py
diff --git a/‎test/test_vcf.py renamed to ‎tests/test_vcf.py b/‎test/test_vcf.py renamed to ‎tests/test_vcf.py
diff --git a/‎test/test_vcf_output.py renamed to ‎tests/test_vcf_output.py b/‎test/test_vcf_output.py renamed to ‎tests/test_vcf_output.py
@@ -4,9 +4,9 @@ set -o errexit
 # getting false positives due to this issue with pylint:
 # https://bitbucket.org/logilab/pylint/issues/701/false-positives-with-not-an-iterable-and
 
-find varcode test -name '*.py' \
+find varcode tests -name '*.py' \
   | xargs pylint \
   --errors-only \
-  --disable=print-statement,unsubscriptable-object,not-an-iterable
+  --disable=unsubscriptable-object,not-an-iterable
 
 echo 'Passes pylint check'