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authorBonfaceKilz2020-10-29 01:35:12 +0300
committerGitHub2020-10-29 01:35:12 +0300
commitf3e01550a63238688a12152ab560db6d02e09a82 (patch)
treee43b6e543adad575b23fa7b3532e1c5efd47a005
parent70ac7df94067a2d45a6d3498a85fe27014b159d6 (diff)
parenta56e5e9d5d0c3f157599677e937deb0bbb71debb (diff)
downloadgenenetwork2-f3e01550a63238688a12152ab560db6d02e09a82.tar.gz
Merge pull request #471 from BonfaceKilz/bug/replace-map-on-strip-method
Bug/Replace map on strip with a list comprehension that calls strip()
-rwxr-xr-xscripts/maintenance/readProbeSetSE_v7.py6
-rw-r--r--wqflask/wqflask/marker_regression/plink_mapping.py4
-rw-r--r--wqflask/wqflask/snp_browser/snp_browser.py6
3 files changed, 8 insertions, 8 deletions
diff --git a/scripts/maintenance/readProbeSetSE_v7.py b/scripts/maintenance/readProbeSetSE_v7.py
index edd9e7b0..2cfe2e07 100755
--- a/scripts/maintenance/readProbeSetSE_v7.py
+++ b/scripts/maintenance/readProbeSetSE_v7.py
@@ -72,14 +72,14 @@ GeneList = []
isCont = 1
header = fp.readline()
header = header.strip().split('\t')
-header = list(map(string.strip, header))
+header = [item.strip() for item in header]
nfield = len(header)
line = fp.readline()
kj = 0
while line:
line2 = line.strip().split('\t')
- line2 = list(map(string.strip, line2))
+ line2 = [item.strip() for item in line2]
if len(line2) != nfield:
isCont = 0
print(("Error : " + line))
@@ -110,7 +110,7 @@ isCont = 1
fp.seek(0)
header = fp.readline()
header = header.strip().split('\t')
-header = list(map(string.strip, header))
+header = [item.strip() for item in header]
header = list(map(translateAlias, header))
header = header[dataStart:]
Ids = []
diff --git a/wqflask/wqflask/marker_regression/plink_mapping.py b/wqflask/wqflask/marker_regression/plink_mapping.py
index 6c38c34f..fd91b6ca 100644
--- a/wqflask/wqflask/marker_regression/plink_mapping.py
+++ b/wqflask/wqflask/marker_regression/plink_mapping.py
@@ -84,7 +84,7 @@ def get_samples_from_ped_file(dataset):
while line:
lineList = line.strip().split('\t')
- lineList = list(map(string.strip, lineList))
+ lineList = [item.strip() for item in lineList]
sample_name = lineList[0]
sample_list.append(sample_name)
@@ -157,6 +157,6 @@ def parse_plink_output(output_filename, species):
def build_line_list(line=None):
line_list = line.strip().split(' ')# irregular number of whitespaces between columns
line_list = [item for item in line_list if item !='']
- line_list = list(map(string.strip, line_list))
+ line_list = [item.strip() for item in line_list]
return line_list
diff --git a/wqflask/wqflask/snp_browser/snp_browser.py b/wqflask/wqflask/snp_browser/snp_browser.py
index 2df71b12..6c3fcf53 100644
--- a/wqflask/wqflask/snp_browser/snp_browser.py
+++ b/wqflask/wqflask/snp_browser/snp_browser.py
@@ -457,7 +457,7 @@ class SnpBrowser(object):
function_list = []
if function_details:
function_list = function_details.strip().split(",")
- function_list = list(map(string.strip, function_list))
+ function_list = [item.strip() for item in function_list]
function_list[0] = function_list[0].title()
function_details = ", ".join(item for item in function_list)
function_details = function_details.replace("_", " ")
@@ -723,11 +723,11 @@ def get_effect_details_by_category(effect_name = None, effect_value = None):
codon_effect_group_list = ['Start Lost', 'Stop Gained', 'Stop Lost', 'Nonsynonymous', 'Synonymous']
effect_detail_list = effect_value.strip().split('|')
- effect_detail_list = list(map(string.strip, effect_detail_list))
+ effect_detail_list = [item.strip() for item in effect_detail_list]
for index, item in enumerate(effect_detail_list):
item_list = item.strip().split(',')
- item_list = list(map(string.strip, item_list))
+ item_list = [item.strip() for item in item_list]
gene_id = item_list[0]
gene_name = item_list[1]