From 658773c7f2b9d688bacd8254c27be3c24209b76d Mon Sep 17 00:00:00 2001
From: Loraine Gueguen <loraine.gueguen@sb-roscoff.fr>
Date: Thu, 6 May 2021 11:53:38 +0200
Subject: [PATCH] Remove replace()
---
speciesData.py | 11 -----------
1 file changed, 11 deletions(-)
diff --git a/speciesData.py b/speciesData.py
index a8637b0..3684522 100755
--- a/speciesData.py
+++ b/speciesData.py
@@ -59,9 +59,6 @@ class SpeciesData:
self.genus_uppercase = self.genus[0].upper() + self.genus[1:]
self.chado_species_name = "{0} {1}".format(self.species, self.sex)
self.full_name = ' '.join(utilities.filter_empty_not_empty_items([self.genus_uppercase, self.species, self.strain, self.sex])["not_empty"])
- self.full_name = self.full_name.replace("__", "_").replace("_ ", "_").replace(" _", "_")
- if self.full_name.endswith("_") or self.full_name.endswith(" "):
- self.full_name = self.full_name[0:-2]
self.full_name_lowercase = self.full_name.lower()
self.abbreviation = "_".join(utilities.filter_empty_not_empty_items([self.genus_lowercase[0], self.species, self.strain, self.sex])["not_empty"])
@@ -97,13 +94,5 @@ class SpeciesData:
self.datasets = dict()
self.config = None # Custom config used to set environment variables inside containers
self.species_folder_name = "_".join(utilities.filter_empty_not_empty_items([self.genus_lowercase.lower(), self.species.lower(), self.strain.lower(), self.sex.lower()])["not_empty"])
- self.species_folder_name = self.species_folder_name .replace("-", "_").replace('__', '_').replace("(", "_").replace(")", "_")
- if self.species_folder_name.endswith("_"):
- self.species_folder_name = self.species_folder_name[0:-2]
self.existing_folders_cache = {}
self.bam_metadata_cache = {}
-
- # # Sanitize str attributes
- # for var in vars(self):
- # for attr in var if type(attr) == str:
- # attr = attr.replace("(", "_").replace(")", "_")
--
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