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annotate version_command.py @ 0:77cbd6ef42f1 draft default tip

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planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
author iuc
date Wed, 28 Aug 2024 12:53:22 +0000
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77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
diff changeset
1 #!/usr/bin/env python
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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2 """Modules to execute shell commands (through child process) and regex"""
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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3 import re
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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4 import subprocess
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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5
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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6
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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7 def get_astral_version():
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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8 """Function that will parse the Astral version from `astral --help`."""
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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9 try:
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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10 # run the `astral --help` command
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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11 result = subprocess.run(
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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12 ['astral', '--help'],
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
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13 stdout=subprocess.PIPE,
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
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14 stderr=subprocess.PIPE,
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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15 text=True,
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
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16 check=False
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
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17 )
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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18 # save the output
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
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19 output = result.stdout + result.stderr
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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20 # Regex pattern that matches the version string from the help message
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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21 version_pattern = re.compile(r'This is ASTRAL version (\d+\.\d+\.\d+)')
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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22 # search for the version pattern in the output
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
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23 match = version_pattern.search(output)
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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24 if match:
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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25 # extract and return the version string
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
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26 return match.group(1)
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
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27 print("Version information not found in `astral --help` output.")
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
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28 return None
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
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29 except subprocess.CalledProcessError as e:
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
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30 print(f"Command failed with error: {e}")
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
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31 return None
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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32 except FileNotFoundError as e:
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
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33 print(f"Command not found: {e}")
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
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34 return None
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
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35 except Exception as e:
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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36 print(f"An error occurred: {e}")
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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37 return None
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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38
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
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39
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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40 # call the function and print the version
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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41 version = get_astral_version()
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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42 if version:
77cbd6ef42f1 planemo upload for repository https://github.com/usegalaxy-be/galaxytools/tree/main/astral commit 10aeeb461530c00256dc13695f45eba8d8c6ccb5
iuc
parents:
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43 print(version)