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abims
e-infra
gga_load_data
Commits
f3644d24
Commit
f3644d24
authored
3 years ago
by
Arthur Le Bars
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rollback workflow version
parent
aa412602
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2 merge requests
!9
Release 2.0 (merge dev to master)
,
!5
Workflow v2
Changes
1
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1 changed file
run_workflow_phaeoexplorer.py
+1
-2
1 addition, 2 deletions
run_workflow_phaeoexplorer.py
with
1 addition
and
2 deletions
run_workflow_phaeoexplorer.py
+
1
−
2
View file @
f3644d24
...
@@ -987,7 +987,7 @@ if __name__ == "__main__":
...
@@ -987,7 +987,7 @@ if __name__ == "__main__":
logging
.
info
(
"
Input organism %s: 2 species detected in input dictionary
"
%
k
)
logging
.
info
(
"
Input organism %s: 2 species detected in input dictionary
"
%
k
)
# Set workflow path (2 organisms)
# Set workflow path (2 organisms)
workflow_path
=
os
.
path
.
join
(
os
.
path
.
abspath
(
script_dir
),
"
workflows_phaeoexplorer/Galaxy-Workflow-chado_load_tripal_synchronize_jbrowse_2org_v
3
.ga
"
)
workflow_path
=
os
.
path
.
join
(
os
.
path
.
abspath
(
script_dir
),
"
workflows_phaeoexplorer/Galaxy-Workflow-chado_load_tripal_synchronize_jbrowse_2org_v
2
.ga
"
)
# Instance object required variables
# Instance object required variables
instance_url
,
email
,
password
=
None
,
None
,
None
instance_url
,
email
,
password
=
None
,
None
,
None
...
@@ -1084,7 +1084,6 @@ if __name__ == "__main__":
...
@@ -1084,7 +1084,6 @@ if __name__ == "__main__":
# Look for empty parameters values, throw a critical error if a parameter value is invalid
# Look for empty parameters values, throw a critical error if a parameter value is invalid
for
param_name
,
param_value
in
org2_parameters_dict
.
items
():
for
param_name
,
param_value
in
org2_parameters_dict
.
items
():
logging
.
info
(
"
Parameters for organism 1 (%s)
"
%
org2_full_name
)
if
param_value
is
None
or
param_value
==
""
:
if
param_value
is
None
or
param_value
==
""
:
logging
.
critical
(
"
Empty parameter found for organism {0} (parameter: {1}, parameter value: {2})
"
.
format
(
org2_full_name
,
param_name
,
param_value
))
logging
.
critical
(
"
Empty parameter found for organism {0} (parameter: {1}, parameter value: {2})
"
.
format
(
org2_full_name
,
param_name
,
param_value
))
sys
.
exit
()
sys
.
exit
()
...
...
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