Initial commit.

Author: Peter Amstutz

README

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+Wrap cwltool to perform multiple executions of a given workflow where input
+objects are provided on stdin and output objects are printed on stdout.

cwl_service.py

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+#!/usr/bin/env python
+
+import sys
+import cwltool.main
+import tempfile
+import logging
+
+_logger = logging.getLogger("cwltool")
+_logger.setLevel(logging.ERROR)
+
+def main(args=None):
+    if args is None:
+        args = sys.argv[1:]
+
+    if len(args) == 0:
+        print "Workflow must be on command line"
+        return 1
+
+    a = True
+    while a:
+        a = True
+        msg = ""
+        while a and a != "\n":
+            a = sys.stdin.readline()
+            msg += a
+
+        t = tempfile.NamedTemporaryFile()
+        t.write(msg)
+        t.flush()
+        if cwltool.main.main([args[0], t.name]) != 0:
+            return 1
+        sys.stdout.write("\n\n")
+
+if __name__ == "__main__":
+    sys.exit(main(sys.argv[1:]))

setup.py

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+#!/usr/bin/env python
+
+import os
+import sys
+import setuptools.command.egg_info as egg_info_cmd
+import shutil
+
+from setuptools import setup, find_packages
+
+SETUP_DIR = os.path.dirname(__file__)
+README = os.path.join(SETUP_DIR, 'README')
+
+setup(name='cwl_service',
+      version='1.0',
+      description='Common workflow language runner service',
+      long_description=open(README).read(),
+      author='Common workflow language working group',
+      author_email='[email protected]',
+      url="https://github.com/common-workflow-language/common-workflow-language",
+      download_url="https://github.com/common-workflow-language/common-workflow-language",
+      license='Apache 2.0',
+      py_modules=["cwl_service"],
+      install_requires=[
+          'cwltool'
+        ],
+      entry_points={
+          'console_scripts': [ "cwl-service=cwl_service:main" ]
+      },
+      zip_safe=True
+)