make tests work

bihealth · Dec 27, 2022 · 625bd56 · 625bd56
1 parent 75f5e56
commit 625bd56
Show file tree

Hide file tree

Showing 144 changed files with 456 additions and 410 deletions.
diff --git a/snappy_pipeline/workflows/gcnv/gcnv_run.py b/snappy_pipeline/workflows/gcnv/gcnv_run.py
@@ -22,8 +22,8 @@
 RESULT_EXTENSIONS = {
     "vcf": ".vcf.gz",
     "vcf_md5": ".vcf.gz.md5",
-    "tbi": ".vcf.gz.tbi",
-    "tbi_md5": ".vcf.gz.tbi.md5",
+    "vcf_tbi": ".vcf.gz.tbi",
+    "vcf_tbi_md5": ".vcf.gz.tbi.md5",
 }
 
 #: Predefined file name keys and extensions for log files.

diff --git a/snappy_pipeline/workflows/ngs_mapping/__init__.py b/snappy_pipeline/workflows/ngs_mapping/__init__.py
@@ -992,8 +992,8 @@ def get_output_files(self, action):
     def _get_output_files_run_work(self):
         yield "vcf", "work/{mapper}.{library_name}/report/cov/{mapper}.{library_name}.cov.vcf.gz"
         yield "vcf_md5", "work/{mapper}.{library_name}/report/cov/{mapper}.{library_name}.cov.vcf.gz.md5"
-        yield "tbi", "work/{mapper}.{library_name}/report/cov/{mapper}.{library_name}.cov.vcf.gz.tbi"
-        yield "tbi_md5", "work/{mapper}.{library_name}/report/cov/{mapper}.{library_name}.cov.vcf.gz.tbi.md5"
+        yield "vcf_tbi", "work/{mapper}.{library_name}/report/cov/{mapper}.{library_name}.cov.vcf.gz.tbi"
+        yield "vcf_tbi_md5", "work/{mapper}.{library_name}/report/cov/{mapper}.{library_name}.cov.vcf.gz.tbi.md5"
         yield "bw", "work/{mapper}.{library_name}/report/cov/{mapper}.{library_name}.cov.bw"
         yield "bw_md5", "work/{mapper}.{library_name}/report/cov/{mapper}.{library_name}.cov.bw.md5"
 

diff --git a/snappy_pipeline/workflows/panel_of_normals/__init__.py b/snappy_pipeline/workflows/panel_of_normals/__init__.py
@@ -69,7 +69,7 @@
 EXT_VALUES = (".vcf.gz", ".vcf.gz.tbi", ".vcf.gz.md5", ".vcf.gz.tbi.md5")
 
 #: Names of the files to create for the extension
-EXT_NAMES = ("vcf", "tbi", "vcf_md5", "tbi_md5")
+EXT_NAMES = ("vcf", "vcf_tbi", "vcf_md5", "vcf_tbi_md5")
 
 #: Names of the tools that might use panel of normals
 TOOLS = ["mutect2"]
@@ -220,8 +220,8 @@ def get_output_files(self, action):
         ext_dict = {
             "vcf": "vcf.gz",
             "vcf_md5": "vcf.gz.md5",
-            "tbi": "vcf.gz.tbi",
-            "tbi_md5": "vcf.gz.tbi.md5",
+            "vcf_tbi": "vcf.gz.tbi",
+            "vcf_tbi_md5": "vcf.gz.tbi.md5",
         }
         tpls = {
             "prepare_panel": "work/{{mapper}}.{tool}.prepare_panel/out/{{normal_library}}.{ext}",

diff --git a/snappy_pipeline/workflows/roh_calling/__init__.py b/snappy_pipeline/workflows/roh_calling/__init__.py
@@ -133,9 +133,9 @@
 #: Key => extension mapping for BED file.
 BED_EXTENSIONS = {
     "bed": ".bed.gz",
-    "tbi": ".bed.gz.tbi",
+    "vcf_tbi": ".bed.gz.tbi",
     "bed_md5": ".bed.gz.md5",
-    "tbi_md5": ".bed.gz.tbi.md5",
+    "tbi_vcf_md5": ".bed.gz.tbi.md5",
 }
 
 
@@ -168,7 +168,7 @@ def _get_input_files_run(self, wildcards):
             "output/{mapper}.{var_caller}.{index_ngs_library}/out/"
             "{mapper}.{var_caller}.{index_ngs_library}"
         )
-        key_ext = {"vcf": ".vcf.gz", "tbi": ".vcf.gz.tbi"}
+        key_ext = {"vcf": ".vcf.gz", "vcf_tbi": ".vcf.gz.tbi"}
         variant_calling = self.parent.sub_workflows["variant_calling"]
         for key, ext in key_ext.items():
             yield key, variant_calling(tpl.format(**wildcards) + ext)

diff --git a/snappy_pipeline/workflows/somatic_targeted_seq_cnv_calling/__init__.py b/snappy_pipeline/workflows/somatic_targeted_seq_cnv_calling/__init__.py
@@ -159,8 +159,8 @@
 BCF_KEY_EXTS = (
     ("bcf", ".bcf"),
     ("bcf_md5", ".bcf.md5"),
-    ("csi", ".bcf.csi"),
-    ("csi_md5", ".bcf.csi.md5"),
+    ("bcf_csi", ".bcf.csi"),
+    ("bcf_csi_md5", ".bcf.csi.md5"),
 )
 
 
@@ -635,7 +635,7 @@ def _get_output_files_plot(self):
 
     @staticmethod
     def _get_output_files_export():
-        keys = ("bed", "seg", "vcf", "tbi")
+        keys = ("bed", "seg", "vcf", "vcf_tbi")
         exts = ("bed", "seg", "vcf.gz", "vcf.gz.tbi")
         name_pattern = "{mapper}.cnvkit.export.{library_name}"
         tpl = os.path.join("work", name_pattern, "out", name_pattern + ".{ext}")

diff --git a/snappy_pipeline/workflows/somatic_variant_annotation/__init__.py b/snappy_pipeline/workflows/somatic_variant_annotation/__init__.py
@@ -71,7 +71,7 @@
 EXT_VALUES = (".vcf.gz", ".vcf.gz.tbi", ".vcf.gz.md5", ".vcf.gz.tbi.md5")
 
 #: Names of the files to create for the extension
-EXT_NAMES = ("vcf", "tbi", "vcf_md5", "tbi_md5")
+EXT_NAMES = ("vcf", "vcf_tbi", "vcf_md5", "vcf_tbi_md5")
 
 #: Default configuration for the somatic_variant_calling step
 DEFAULT_CONFIG = r"""
@@ -144,7 +144,7 @@ def get_input_files(self, action):
             "output/{mapper}.{var_caller}.{tumor_library}/out/"
             "{mapper}.{var_caller}.{tumor_library}"
         )
-        key_ext = {"vcf": ".vcf.gz", "tbi": ".vcf.gz.tbi"}
+        key_ext = {"vcf": ".vcf.gz", "vcf_tbi": ".vcf.gz.tbi"}
         variant_calling = self.parent.sub_workflows["somatic_variant_calling"]
         for key, ext in key_ext.items():
             yield key, variant_calling(tpl + ext)
@@ -158,7 +158,7 @@ def get_output_files(self, action):
             "work/{mapper}.{var_caller}.jannovar_annotate_somatic_vcf.{tumor_library}/out/"
             "{mapper}.{var_caller}.jannovar_annotate_somatic_vcf.{tumor_library}"
         )
-        key_ext = {"vcf": ".vcf.gz", "tbi": ".vcf.gz.tbi"}
+        key_ext = {"vcf": ".vcf.gz", "vcf_tbi": ".vcf.gz.tbi"}
         for key, ext in key_ext.items():
             yield key, prefix + ext
             yield key + "_md5", prefix + ext + ".md5"

diff --git a/snappy_pipeline/workflows/somatic_variant_calling/__init__.py b/snappy_pipeline/workflows/somatic_variant_calling/__init__.py
@@ -100,18 +100,18 @@
 EXT_VALUES = (".vcf.gz", ".vcf.gz.tbi", ".vcf.gz.md5", ".vcf.gz.tbi.md5")
 
 #: Names of the files to create for the extension
-EXT_NAMES = ("vcf", "tbi", "vcf_md5", "tbi_md5")
+EXT_NAMES = ("vcf", "vcf_tbi", "vcf_md5", "vcf_tbi_md5")
 
 EXTS_MATCHED = {
     "mutect": {
         "vcf": ".vcf.gz",
         "vcf_md5": ".vcf.gz.md5",
-        "tbi": ".vcf.gz.tbi",
-        "tbi_md5": ".vcf.gz.tbi.md5",
+        "vcf_tbi": ".vcf.gz.tbi",
+        "vcf_tbi_md5": ".vcf.gz.tbi.md5",
         "full": ".full.vcf.gz",
         "full_md5": ".full.vcf.gz.md5",
-        "full_tbi": ".full.vcf.gz.tbi",
-        "full_tbi_md5": ".full.vcf.gz.tbi.md5",
+        "full_vcf_tbi": ".full.vcf.gz.tbi",
+        "full_vcf_tbi_md5": ".full.vcf.gz.tbi.md5",
         "txt": ".txt",
         "txt_md5": ".txt.md5",
         "wig": ".wig",
@@ -120,23 +120,23 @@
     "scalpel": {
         "vcf": ".vcf.gz",
         "vcf_md5": ".vcf.gz.md5",
-        "tbi": ".vcf.gz.tbi",
-        "tbi_md5": ".vcf.gz.tbi.md5",
+        "vcf_tbi": ".vcf.gz.tbi",
+        "vcf_tbi_md5": ".vcf.gz.tbi.md5",
         "full": ".full.vcf.gz",
         "full_md5": ".full.vcf.gz.md5",
-        "full_tbi": ".full.vcf.gz.tbi",
-        "full_tbi_md5": ".full.vcf.gz.tbi.md5",
+        "full_vcf_tbi": ".full.vcf.gz.tbi",
+        "full_vcf_tbi_md5": ".full.vcf.gz.tbi.md5",
         "tar": ".tar.gz",
     },
     "mutect2": {
         "vcf": ".vcf.gz",
         "vcf_md5": ".vcf.gz.md5",
-        "tbi": ".vcf.gz.tbi",
-        "tbi_md5": ".vcf.gz.tbi.md5",
+        "vcf_tbi": ".vcf.gz.tbi",
+        "vcf_tbi_md5": ".vcf.gz.tbi.md5",
         "full": ".full.vcf.gz",
         "full_md5": ".full.vcf.gz.md5",
-        "full_tbi": ".full.vcf.gz.tbi",
-        "full_tbi_md5": ".full.vcf.gz.tbi.md5",
+        "full_vcf_tbi": ".full.vcf.gz.tbi",
+        "full_vcf_tbi_md5": ".full.vcf.gz.tbi.md5",
         "stats": ".vcf.stats",
         "stats_md5": ".vcf.stats.md5",
         "f1r2": ".f1r2_tar.tar.gz",
@@ -670,12 +670,12 @@ def get_output_files(self, action):
             exts = {
                 "full": ".full.vcf.gz",
                 "full_md5": ".full.vcf.gz.md5",
-                "full_tbi": ".full.vcf.gz.tbi",
-                "full_tbi_md5": ".full.vcf.gz.tbi.md5",
+                "full_vcf_tbi": ".full.vcf.gz.tbi",
+                "full_vcf_tbi_md5": ".full.vcf.gz.tbi.md5",
                 "vcf": ".vcf.gz",
                 "vcf_md5": ".vcf.gz.md5",
-                "tbi": ".vcf.gz.tbi",
-                "tbi_md5": ".vcf.gz.tbi.md5",
+                "vcf_tbi": ".vcf.gz.tbi",
+                "vcf_tbi_md5": ".vcf.gz.tbi.md5",
             }
         if action == "contamination":
             exts = {
@@ -808,12 +808,12 @@ class Strelka2StepPart(SomaticVariantCallingStepPart):
     extensions = {
         "vcf": ".vcf.gz",
         "vcf_md5": ".vcf.gz.md5",
-        "tbi": ".vcf.gz.tbi",
-        "tbi_md5": ".vcf.gz.tbi.md5",
+        "vcf_tbi": ".vcf.gz.tbi",
+        "vcf_tbi_md5": ".vcf.gz.tbi.md5",
         "full": ".full.vcf.gz",
         "full_md5": ".full.vcf.gz.md5",
-        "full_tbi": ".full.vcf.gz.tbi",
-        "full_tbi_md5": ".full.vcf.gz.tbi.md5",
+        "full_vcf_tbi": ".full.vcf.gz.tbi",
+        "full_vcf_tbi_md5": ".full.vcf.gz.tbi.md5",
         "stats": ".tsv",
         "stats_md5": ".tsv.md5",
         "report": ".xml",

diff --git a/snappy_pipeline/workflows/somatic_variant_filtration/__init__.py b/snappy_pipeline/workflows/somatic_variant_filtration/__init__.py
@@ -76,7 +76,7 @@
 EXT_VALUES = (".vcf.gz", ".vcf.gz.tbi", ".vcf.gz.md5", ".vcf.gz.tbi.md5")
 
 #: Names of the files to create for the extension
-EXT_NAMES = ("vcf", "tbi", "vcf_md5", "tbi_md5")
+EXT_NAMES = ("vcf", "vcf_tbi", "vcf_md5", "vcf_tbi_md5")
 
 #: Default configuration for the somatic_variant_calling step
 DEFAULT_CONFIG = r"""
@@ -216,7 +216,7 @@ def get_input_files(self, action):
             "output/{mapper}.{var_caller}.jannovar_annotate_somatic_vcf.{tumor_library}/out/"
             "{mapper}.{var_caller}.jannovar_annotate_somatic_vcf.{tumor_library}"
         )
-        key_ext = {"vcf": ".vcf.gz", "tbi": ".vcf.gz.tbi"}
+        key_ext = {"vcf": ".vcf.gz", "vcf_tbi": ".vcf.gz.tbi"}
         variant_annotation = self.parent.sub_workflows["somatic_variant_annotation"]
         for key, ext in key_ext.items():
             yield key, variant_annotation(tpl + ext)
@@ -239,9 +239,9 @@ def get_output_files(self, action):
         )
         key_ext = {
             "vcf": ".vcf.gz",
-            "tbi": ".vcf.gz.tbi",
+            "vcf_tbi": ".vcf.gz.tbi",
             "vcf_md5": ".vcf.gz.md5",
-            "tbi_md5": ".vcf.gz.tbi.md5",
+            "vcf_tbi_md5": ".vcf.gz.tbi.md5",
         }
         for key, ext in key_ext.items():
             yield key, prefix + ext
@@ -293,7 +293,7 @@ def _get_input_files_run(self, wildcards):
             "jannovar_annotate_somatic_vcf.dkfz_bias_filter."
             "{tumor_library}"
         )
-        key_ext = {"vcf": ".vcf.gz", "tbi": ".vcf.gz.tbi"}
+        key_ext = {"vcf": ".vcf.gz", "vcf_tbi": ".vcf.gz.tbi"}
         for key, ext in key_ext.items():
             yield key, tpl.format(**wildcards) + ext
         # BAM file and index
@@ -325,9 +325,9 @@ def _get_output_files_run(self):
         )
         key_ext = {
             "vcf": ".vcf.gz",
-            "tbi": ".vcf.gz.tbi",
+            "vcf_tbi": ".vcf.gz.tbi",
             "vcf_md5": ".vcf.gz.md5",
-            "tbi_md5": ".vcf.gz.tbi.md5",
+            "vcf_tbi_md5": ".vcf.gz.tbi.md5",
         }
         for key, ext in key_ext.items():
             yield key, prefix + ext
@@ -445,7 +445,7 @@ def get_input_files(self, action):
             "jannovar_annotate_somatic_vcf.dkfz_bias_filter.eb_filter."
             "{tumor_library}"
         )
-        key_ext = {"vcf": ".vcf.gz", "tbi": ".vcf.gz.tbi"}
+        key_ext = {"vcf": ".vcf.gz", "vcf_tbi": ".vcf.gz.tbi"}
         for key, ext in key_ext.items():
             yield key, tpl + ext
 

diff --git a/snappy_pipeline/workflows/somatic_variant_signatures/__init__.py b/snappy_pipeline/workflows/somatic_variant_signatures/__init__.py
@@ -90,7 +90,7 @@ def get_input_files(self, action):
             "output/{mapper}.{var_caller}.{tumor_library}/out/"
             "{mapper}.{var_caller}.{tumor_library}"
         )
-        key_ext = {"vcf": ".vcf.gz", "tbi": ".vcf.gz.tbi"}
+        key_ext = {"vcf": ".vcf.gz", "vcf_tbi": ".vcf.gz.tbi"}
         variant_calling = self.parent.sub_workflows["somatic_variant_calling"]
         for key, ext in key_ext.items():
             yield key, variant_calling(tpl + ext)

diff --git a/snappy_pipeline/workflows/somatic_wgs_cnv_calling/__init__.py b/snappy_pipeline/workflows/somatic_wgs_cnv_calling/__init__.py
@@ -97,7 +97,7 @@
 BCF_EXT_VALUES = (".bcf", ".bcf.csi", ".bcf.md5", ".bcf.csi.md5")
 
 #: Names of the files to create for the extension
-EXT_NAMES = ("vcf", "tbi", "vcf_md5", "tbi_md5")
+EXT_NAMES = ("vcf", "vcf_tbi", "vcf_md5", "vcf_tbi_md5")
 
 #: Available somatic WGS CNV callers
 SOMATIC_WGS_CNV_CALLERS = ("canvas", "cnvetti", "control_freec")
@@ -287,7 +287,12 @@ class CnvettiSomaticWgsStepPart(SomaticWgsCnvCallingStepPart):
     actions = ("coverage", "tumor_normal_ratio", "segment")
 
     #: Extension file dictionary. Key: file type (string); Value: file extension (string)
-    bcf_dict = {"bcf": ".bcf", "csi": ".bcf.csi", "bcf_md5": ".bcf.md5", "csi_md5": ".bcf.csi.md5"}
+    bcf_dict = {
+        "bcf": ".bcf",
+        "bcf_csi": ".bcf.csi",
+        "bcf_md5": ".bcf.md5",
+        "bcf_csi_md5": ".bcf.csi.md5",
+    }
 
     def get_input_files(self, action):
         """Return input function for CNVetti rule"""

diff --git a/snappy_pipeline/workflows/somatic_wgs_sv_calling/__init__.py b/snappy_pipeline/workflows/somatic_wgs_sv_calling/__init__.py
@@ -95,7 +95,7 @@
 EXT_VALUES = (".vcf.gz", ".vcf.gz.tbi", ".vcf.gz.md5", ".vcf.gz.tbi.md5")
 
 #: Names of the files to create for the extension
-EXT_NAMES = ("vcf", "tbi", "vcf_md5", "tbi_md5")
+EXT_NAMES = ("vcf", "vcf_tbi", "vcf_md5", "vcf_tbi_md5")
 
 #: Available somatic variant callers
 SOMATIC_VARIANT_CALLERS = ("manta", "delly2")

diff --git a/snappy_pipeline/workflows/targeted_seq_cnv_annotation/__init__.py b/snappy_pipeline/workflows/targeted_seq_cnv_annotation/__init__.py
@@ -78,7 +78,7 @@
 EXT_VALUES = (".vcf.gz", ".vcf.gz.tbi", ".vcf.gz.md5", ".vcf.gz.tbi.md5")
 
 #: Names of the files to create for the extension
-EXT_NAMES = ("vcf", "tbi", "vcf_md5", "tbi_md5")
+EXT_NAMES = ("vcf", "vcf_tbi", "vcf_md5", "vcf_tbi_md5")
 
 #: Default configuration of the targeted_seq_cnv_filtration step
 DEFAULT_CONFIG = r"""
@@ -155,7 +155,7 @@ def input_function(wildcards):
                 "output/{mapper}.{caller}.{index_ngs_library}/out/"
                 "{mapper}.{caller}.{index_ngs_library}"
             )
-            key_ext = {"vcf": ".vcf.gz", "tbi": ".vcf.gz.tbi"}
+            key_ext = {"vcf": ".vcf.gz", "vcf_tbi": ".vcf.gz.tbi"}
             # SVs
             targeted_seq_cnv_calling = self.parent.sub_workflows["targeted_seq_cnv_calling"]
             if wildcards.caller == "xhmm":
@@ -184,9 +184,9 @@ def get_output_files(self, action):
         )
         key_ext = {
             "vcf": ".vcf.gz",
-            "tbi": ".vcf.gz.tbi",
+            "vcf_tbi": ".vcf.gz.tbi",
             "vcf_md5": ".vcf.gz.md5",
-            "tbi_md5": ".vcf.gz.tbi.md5",
+            "vcf_tbi_md5": ".vcf.gz.tbi.md5",
         }
         for key, ext in key_ext.items():
             yield key, prefix + ext

diff --git a/snappy_pipeline/workflows/targeted_seq_cnv_calling/__init__.py b/snappy_pipeline/workflows/targeted_seq_cnv_calling/__init__.py
@@ -91,7 +91,7 @@
 EXT_VALUES = (".vcf.gz", ".vcf.gz.tbi", ".vcf.gz.md5", ".vcf.gz.tbi.md5")
 
 #: Names of the files to create for the extension
-EXT_NAMES = ("vcf", "tbi", "vcf_md5", "tbi_md5")
+EXT_NAMES = ("vcf", "vcf_tbi", "vcf_md5", "vcf_tbi_md5")
 
 #: Available WGS CNV callers
 TARGETED_SEQ_CNV_CALLERS = ("xhmm", "gcnv")
@@ -366,7 +366,7 @@ def _get_input_files_extract_ped(self, wildcards):
         name_pattern = "{mapper}.xhmm_genotype.{library_kit}".format(
             library_kit=library_kit, **wildcards
         )
-        for key, ext in (("vcf", ".vcf.gz"), ("tbi", ".vcf.gz.tbi")):
+        for key, ext in (("vcf", ".vcf.gz"), ("vcf_tbi", ".vcf.gz.tbi")):
             yield key, "work/{name_pattern}/out/{name_pattern}{ext}".format(
                 name_pattern=name_pattern, ext=ext
             )
@@ -476,8 +476,8 @@ def _get_output_files_genotype():
         kvs = (
             ("vcf", ".vcf.gz"),
             ("vcf_md5", ".vcf.gz.md5"),
-            ("tbi", ".vcf.gz.tbi"),
-            ("tbi_md5", ".vcf.gz.tbi.md5"),
+            ("vcf_tbi", ".vcf.gz.tbi"),
+            ("vcf_tbi_md5", ".vcf.gz.tbi.md5"),
         )
         for key, suffix in kvs:
             yield key, "work/{name_pattern}/out/{name_pattern}{suffix}".format(
@@ -491,8 +491,8 @@ def _get_output_files_extract_ped():
         kvs = (
             ("vcf", ".vcf.gz"),
             ("vcf_md5", ".vcf.gz.md5"),
-            ("tbi", ".vcf.gz.tbi"),
-            ("tbi_md5", ".vcf.gz.tbi.md5"),
+            ("vcf_tbi", ".vcf.gz.tbi"),
+            ("vcf_tbi_md5", ".vcf.gz.tbi.md5"),
         )
         for key, suffix in kvs:
             yield key, "work/{name_pattern}/out/{name_pattern}{suffix}".format(

diff --git a/snappy_pipeline/workflows/targeted_seq_cnv_export/__init__.py b/snappy_pipeline/workflows/targeted_seq_cnv_export/__init__.py
@@ -158,7 +158,7 @@ def get_input_files(self, action):
             "output/{mapper}.{var_caller}.annotated.{index_ngs_library}/out/"
             "{mapper}.{var_caller}.annotated.{index_ngs_library}"
         )
-        key_ext = {"vcf": ".vcf.gz", "tbi": ".vcf.gz.tbi"}
+        key_ext = {"vcf": ".vcf.gz", "vcf_tbi": ".vcf.gz.tbi"}
         targeted_seq_cnv_annotation = self.parent.sub_workflows["targeted_seq_cnv_annotation"]
         for key, ext in key_ext.items():
             yield key, targeted_seq_cnv_annotation(tpl + ext)

diff --git a/snappy_pipeline/workflows/targeted_seq_mei_calling/__init__.py b/snappy_pipeline/workflows/targeted_seq_mei_calling/__init__.py
@@ -235,8 +235,8 @@ def _get_output_files_analysis():
             "vcf": ".vcf",
             "vcf_gz": ".vcf.gz",
             "vcf_gz_md5": ".vcf.gz.md5",
-            "tbi": ".vcf.gz.tbi",
-            "tbi_md5": ".vcf.gz.tbi.md5",
+            "vcf_tbi": ".vcf.gz.tbi",
+            "vcf_tbi_md5": ".vcf.gz.tbi.md5",
         }
         for key, ext in ext_dict.items():
             yield key, "work/{name_pattern}/out/{name_pattern}{ext}".format(