Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

use CWL version v1.2 (final not dev) #10

Open
wants to merge 1 commit into
base: master
Choose a base branch
from
Open

use CWL version v1.2 (final not dev) #10

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
2 changes: 1 addition & 1 deletion examples/covid19/genomics/Galaxy-Workflow-COVID-19__Assembly.cwl
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
class: Workflow
cwlVersion: v1.2.0-dev2
cwlVersion: v1.2
doc: 'Abstract CWL Automatically generated from the Galaxy workflow file: COVID-19:
Assembly'
inputs:
Expand Down
2 changes: 1 addition & 1 deletion examples/covid19/genomics/Galaxy-Workflow-COVID-19__MCRA.cwl
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
class: Workflow
cwlVersion: v1.2.0-dev2
cwlVersion: v1.2
doc: 'Abstract CWL Automatically generated from the Galaxy workflow file: COVID-19:
MCRA'
inputs:
Expand Down
2 changes: 1 addition & 1 deletion examples/covid19/genomics/Galaxy-Workflow-COVID-19__RecSel.cwl
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
class: Workflow
cwlVersion: v1.2.0-dev2
cwlVersion: v1.2
doc: 'Abstract CWL Automatically generated from the Galaxy workflow file: COVID-19:
RecSel'
inputs:
Expand Down
2 changes: 1 addition & 1 deletion examples/covid19/genomics/Galaxy-Workflow-COVID-19__S-gene_AA.cwl
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
class: Workflow
cwlVersion: v1.2.0-dev2
cwlVersion: v1.2
doc: 'Abstract CWL Automatically generated from the Galaxy workflow file: COVID-19:
S-gene AA'
inputs:
Expand Down
2 changes: 1 addition & 1 deletion examples/covid19/genomics/Galaxy-Workflow-COVID-19__SE_Variation.cwl
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
class: Workflow
cwlVersion: v1.2.0-dev2
cwlVersion: v1.2
doc: 'Abstract CWL Automatically generated from the Galaxy workflow file: COVID-19:
SE Variation'
inputs:
Expand Down
2 changes: 1 addition & 1 deletion examples/covid19/genomics/Galaxy-Workflow-COVID-19__read_pre-processing_from_SRA_data.cwl
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
class: Workflow
cwlVersion: v1.2.0-dev2
cwlVersion: v1.2
doc: 'Abstract CWL Automatically generated from the Galaxy workflow file: COVID-19:
read pre-processing from SRA data'
inputs:
Expand Down
2 changes: 1 addition & 1 deletion examples/simple_workflow_cwl-interface.cwl
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,4 +1,4 @@
cwlVersion: v1.0
cwlVersion: v1.2
class: Workflow
label: Abstract CWL workflow automatically generated from a Galaxy workflow v2 file
inputs:
Expand Down
2 changes: 1 addition & 1 deletion examples/simple_workflow_cwl_automatic.cwl
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
class: Workflow
cwlVersion: v1.0
cwlVersion: v1.2
inputs:
0/output:
format: Input files have no info about format
Expand Down
2 changes: 1 addition & 1 deletion examples/simple_workflow_galaxy.cwl
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
class: Workflow
cwlVersion: v1.2.0-dev2
cwlVersion: v1.2
doc: 'Abstract CWL Automatically generated from the Galaxy workflow file: Simple workflow'
inputs:
reads_1:
Expand Down
4 changes: 2 additions & 2 deletions galaxy2cwl/get_cwl_interface.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -120,7 +120,7 @@ def process_format1_json(wf_dict):
step_cwl_entry['run'] = step_run_dict
step_cwl_entry['out'] = step_wf_out
cwl_out['steps']=steps
cwl_out['cwlVersion']='v1.2.0-dev2'
cwl_out['cwlVersion']='v1.2'
cwl_out['class']='Workflow'
cwl_out['doc']=cwl_doc
cwl_out['inputs']=wf_inputs
Expand Down Expand Up @@ -268,7 +268,7 @@ def process_format2_yaml(wf_dict):
wf_outputs[output]=output_details
cwl_out={}
cwl_out['steps']=steps
cwl_out['cwlVersion']='v1.2.0-dev1'
cwl_out['cwlVersion']='v1.2'
cwl_out['class']='Workflow'
cwl_out['doc']=cwl_doc
cwl_out['inputs']=wf_inputs
Expand Down