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abims
e-infra
gga_load_data
Commits
b43ae9d1
Commit
b43ae9d1
authored
4 years ago
by
Arthur Le Bars
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Update get_data and load_data scripts (+gga_preprocessing update)
parent
3bfdc8df
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1 merge request
!1
Release 1.0
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gga_get_data.py
+1
-1
1 addition, 1 deletion
gga_get_data.py
gga_load_data.py
+1
-1
1 addition, 1 deletion
gga_load_data.py
with
2 additions
and
2 deletions
gga_get_data.py
+
1
−
1
View file @
b43ae9d1
...
...
@@ -184,4 +184,4 @@ if __name__ == "__main__":
# get_data_for_current_species.batch_modify_fasta_headers()
# logging.info("Successfully formatted files headers %s " % get_data_for_current_species.full_name)
logging
.
info
(
"
Data successfully
loaded and imported
for %s
"
%
get_data_for_current_species
.
full_name
)
logging
.
info
(
"
Data successfully
copied in src_data
for %s
"
%
get_data_for_current_species
.
full_name
)
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gga_load_data.py
+
1
−
1
View file @
b43ae9d1
...
...
@@ -166,7 +166,7 @@ class LoadData(speciesData.SpeciesData):
ftype
=
'
auto
'
clean_name
=
os
.
path
.
basename
(
single_file
)
clean_name
=
clean_name
.
replace
(
'
_
'
,
'
'
)
clean_name
=
clean_name
.
replace
(
'
_
'
,
'
'
)
# Not a good idea for files with a complex name (solution --> rename file or remove the replace)
if
single_file
.
endswith
(
'
.bam
'
):
ftype
=
'
bam
'
...
...
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