Parse comma-separated list as python list #39
Merged
Conversation
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Adds the capability to parse a bash array in a configuration as a python array. Note: since arrays cannot reliably be exported in shell, such variables should only be used locally in a config or by python that is parsing it.
Previous method of reading bash arrays directly did not work because arrays cannot be exported and the configuration loader works by reading exported variables. Instead, we now assume any variable with a comma is a comma-separated list.
Checking for commas had to be moved to first in cast_as_dtype() to avoid commas being considered part of the datatime string. Also added pytest for list parsing.
Codecov ReportAll modified and coverable lines are covered by tests ✅
Additional details and impacted files@@ Coverage Diff @@
## develop #39 +/- ##
===========================================
+ Coverage 50.06% 50.12% +0.06%
===========================================
Files 18 18
Lines 1650 1652 +2
Branches 337 339 +2
===========================================
+ Hits 826 828 +2
Misses 765 765
Partials 59 59 ☔ View full report in Codecov by Sentry. |
DavidHuber-NOAA
requested changes
Jul 25, 2024
DavidHuber-NOAA
approved these changes
Jul 25, 2024
aerorahul
approved these changes
Jul 25, 2024
I thought about that, because some of the namelist variables do use comma-separated lists the same way. But we don't really use any of those in the python system (and if we were to use them in python somewhere down the line, we would probably want them in list for too). |
WalterKolczynski-NOAA
added a commit
to WalterKolczynski-NOAA/global-workflow
that referenced
this pull request
Jul 25, 2024
Adds the ability to run a forecast in segments instead of all at
once. To accomplish this, the `FHMIN_GFS` and `FHMAX_GFS` settings
have been replaced as user-setable variables in favor of
`FCST_SEGMENTS_STR_GFS`, a comma-separated list of the segment
boundaries (thus there will be one more than the number of segments).
For a traditional single-segment forecast, this would just be set to
`"${FHMIN_GFS},${FHMAX_GFS}"`.
The comma-separated list had to be used instead of a bash array as
the variable must be exported in order for the rocoto generator to
see it, and arrays cannot be exported from shell. Capabilty to parse
these into python lists was added to wxflow in an accompanying PR.
To accomodate the new segment metatasks that must be run serially,
the capability of `create_task()` was expanded to allow a dictionary
key of `is_serial`, which controls whether a metatask is parallel or
serial using pre-existing capability in rocoto. The default when not
given is parallel (i.e. most metatasks).
Resolves NOAA-EMC#2274
Refs NOAA-EMC/wxflow#39
7 tasks
WalterKolczynski-NOAA
added a commit
to WalterKolczynski-NOAA/global-workflow
that referenced
this pull request
Jul 25, 2024
Adds the ability to run a forecast in segments instead of all at
once. To accomplish this, the `FHMIN_GFS` and `FHMAX_GFS` settings
have been replaced as user-setable variables in favor of
`FCST_SEGMENTS_STR_GFS`, a comma-separated list of the segment
boundaries (thus there will be one more than the number of segments).
For a traditional single-segment forecast, this would just be set to
`"${FHMIN_GFS},${FHMAX_GFS}"`.
The comma-separated list had to be used instead of a bash array as
the variable must be exported in order for the rocoto generator to
see it, and arrays cannot be exported from shell. Capabilty to parse
these into python lists was added to wxflow in an accompanying PR.
To accomodate the new segment metatasks that must be run serially,
the capability of `create_task()` was expanded to allow a dictionary
key of `is_serial`, which controls whether a metatask is parallel or
serial using pre-existing capability in rocoto. The default when not
given is parallel (i.e. most metatasks).
Resolves NOAA-EMC#2274
Refs NOAA-EMC/wxflow#39
WalterKolczynski-NOAA
added a commit
to WalterKolczynski-NOAA/global-workflow
that referenced
this pull request
Jul 26, 2024
Adds the ability to run a forecast in segments instead of all at
once. To accomplish this, the `FHMIN_GFS` and `FHMAX_GFS` settings
have been replaced as user-setable variables in favor of
`FCST_SEGMENTS_STR_GFS`, a comma-separated list of the segment
boundaries (thus there will be one more than the number of segments).
For a traditional single-segment forecast, this would just be set to
`"${FHMIN_GFS},${FHMAX_GFS}"`.
The comma-separated list had to be used instead of a bash array as
the variable must be exported in order for the rocoto generator to
see it, and arrays cannot be exported from shell. Capabilty to parse
these into python lists was added to wxflow in an accompanying PR.
To accomodate the new segment metatasks that must be run serially,
the capability of `create_task()` was expanded to allow a dictionary
key of `is_serial`, which controls whether a metatask is parallel or
serial using pre-existing capability in rocoto. The default when not
given is parallel (i.e. most metatasks).
Resolves NOAA-EMC#2274
Refs NOAA-EMC/wxflow#39
WalterKolczynski-NOAA
added a commit
to WalterKolczynski-NOAA/global-workflow
that referenced
this pull request
Jul 30, 2024
Adds the ability to run a forecast in segments instead of all at
once. To accomplish this, the `FHMIN_GFS` and `FHMAX_GFS` settings
have been replaced as user-setable variables in favor of
`FCST_SEGMENTS_STR_GFS`, a comma-separated list of the segment
boundaries (thus there will be one more than the number of segments).
For a traditional single-segment forecast, this would just be set to
`"${FHMIN_GFS},${FHMAX_GFS}"`.
The comma-separated list had to be used instead of a bash array as
the variable must be exported in order for the rocoto generator to
see it, and arrays cannot be exported from shell. Capabilty to parse
these into python lists was added to wxflow in an accompanying PR.
To accomodate the new segment metatasks that must be run serially,
the capability of `create_task()` was expanded to allow a dictionary
key of `is_serial`, which controls whether a metatask is parallel or
serial using pre-existing capability in rocoto. The default when not
given is parallel (i.e. most metatasks).
Resolves NOAA-EMC#2274
Refs NOAA-EMC/wxflow#39
WalterKolczynski-NOAA
added a commit
to WalterKolczynski-NOAA/global-workflow
that referenced
this pull request
Jul 30, 2024
Adds the ability to run a forecast in segments instead of all at
once. To accomplish this, the `FHMIN_GFS` and `FHMAX_GFS` settings
have been replaced as user-setable variables in favor of
`FCST_SEGMENTS_STR_GFS`, a comma-separated list of the segment
boundaries (thus there will be one more than the number of segments).
For a traditional single-segment forecast, this would just be set to
`"${FHMIN_GFS},${FHMAX_GFS}"`.
The comma-separated list had to be used instead of a bash array as
the variable must be exported in order for the rocoto generator to
see it, and arrays cannot be exported from shell. Capabilty to parse
these into python lists was added to wxflow in an accompanying PR.
To accomodate the new segment metatasks that must be run serially,
the capability of `create_task()` was expanded to allow a dictionary
key of `is_serial`, which controls whether a metatask is parallel or
serial using pre-existing capability in rocoto. The default when not
given is parallel (i.e. most metatasks).
Resolves NOAA-EMC#2274
Refs NOAA-EMC/wxflow#39
WalterKolczynski-NOAA
added a commit
to WalterKolczynski-NOAA/global-workflow
that referenced
this pull request
Aug 2, 2024
Adds the ability to run a forecast in segments instead of all at
once. To accomplish this, the `FHMIN_GFS` and `FHMAX_GFS` settings
have been replaced as user-setable variables in favor of
`FCST_SEGMENTS_STR_GFS`, a comma-separated list of the segment
boundaries (thus there will be one more than the number of segments).
For a traditional single-segment forecast, this would just be set to
`"${FHMIN_GFS},${FHMAX_GFS}"`.
The comma-separated list had to be used instead of a bash array as
the variable must be exported in order for the rocoto generator to
see it, and arrays cannot be exported from shell. Capabilty to parse
these into python lists was added to wxflow in an accompanying PR.
To accomodate the new segment metatasks that must be run serially,
the capability of `create_task()` was expanded to allow a dictionary
key of `is_serial`, which controls whether a metatask is parallel or
serial using pre-existing capability in rocoto. The default when not
given is parallel (i.e. most metatasks).
Resolves NOAA-EMC#2274
Refs NOAA-EMC/wxflow#39
WalterKolczynski-NOAA
added a commit
to WalterKolczynski-NOAA/global-workflow
that referenced
this pull request
Aug 5, 2024
Adds the ability to run a forecast in segments instead of all at
once. To accomplish this, the `FHMIN_GFS` and `FHMAX_GFS` settings
have been replaced as user-setable variables in favor of
`FCST_SEGMENTS_STR_GFS`, a comma-separated list of the segment
boundaries (thus there will be one more than the number of segments).
For a traditional single-segment forecast, this would just be set to
`"${FHMIN_GFS},${FHMAX_GFS}"`.
The comma-separated list had to be used instead of a bash array as
the variable must be exported in order for the rocoto generator to
see it, and arrays cannot be exported from shell. Capabilty to parse
these into python lists was added to wxflow in an accompanying PR.
To accomodate the new segment metatasks that must be run serially,
the capability of `create_task()` was expanded to allow a dictionary
key of `is_serial`, which controls whether a metatask is parallel or
serial using pre-existing capability in rocoto. The default when not
given is parallel (i.e. most metatasks).
Resolves NOAA-EMC#2274
Refs NOAA-EMC/wxflow#39
WalterKolczynski-NOAA
added a commit
to WalterKolczynski-NOAA/global-workflow
that referenced
this pull request
Aug 6, 2024
Adds the ability to run a forecast in segments instead of all at
once. To accomplish this, the `FHMIN_GFS` and `FHMAX_GFS` settings
have been replaced as user-setable variables in favor of
`FCST_SEGMENTS_STR_GFS`, a comma-separated list of the segment
boundaries (thus there will be one more than the number of segments).
For a traditional single-segment forecast, this would just be set to
`"${FHMIN_GFS},${FHMAX_GFS}"`.
The comma-separated list had to be used instead of a bash array as
the variable must be exported in order for the rocoto generator to
see it, and arrays cannot be exported from shell. Capabilty to parse
these into python lists was added to wxflow in an accompanying PR.
To accomodate the new segment metatasks that must be run serially,
the capability of `create_task()` was expanded to allow a dictionary
key of `is_serial`, which controls whether a metatask is parallel or
serial using pre-existing capability in rocoto. The default when not
given is parallel (i.e. most metatasks).
Resolves NOAA-EMC#2274
Refs NOAA-EMC/wxflow#39
WalterKolczynski-NOAA
added a commit
to WalterKolczynski-NOAA/global-workflow
that referenced
this pull request
Aug 7, 2024
Adds the ability to run a forecast in segments instead of all at
once. To accomplish this, the `FHMIN_GFS` and `FHMAX_GFS` settings
have been replaced as user-setable variables in favor of
`FCST_SEGMENTS_STR_GFS`, a comma-separated list of the segment
boundaries (thus there will be one more than the number of segments).
For a traditional single-segment forecast, this would just be set to
`"${FHMIN_GFS},${FHMAX_GFS}"`.
The comma-separated list had to be used instead of a bash array as
the variable must be exported in order for the rocoto generator to
see it, and arrays cannot be exported from shell. Capabilty to parse
these into python lists was added to wxflow in an accompanying PR.
To accomodate the new segment metatasks that must be run serially,
the capability of `create_task()` was expanded to allow a dictionary
key of `is_serial`, which controls whether a metatask is parallel or
serial using pre-existing capability in rocoto. The default when not
given is parallel (i.e. most metatasks).
Resolves NOAA-EMC#2274
Refs NOAA-EMC/wxflow#39
WalterKolczynski-NOAA
added a commit
to WalterKolczynski-NOAA/global-workflow
that referenced
this pull request
Aug 8, 2024
Adds the ability to run a forecast in segments instead of all at
once. To accomplish this, the `FHMIN_GFS` and `FHMAX_GFS` settings
have been replaced as user-setable variables in favor of
`FCST_SEGMENTS_STR_GFS`, a comma-separated list of the segment
boundaries (thus there will be one more than the number of segments).
For a traditional single-segment forecast, this would just be set to
`"${FHMIN_GFS},${FHMAX_GFS}"`.
The comma-separated list had to be used instead of a bash array as
the variable must be exported in order for the rocoto generator to
see it, and arrays cannot be exported from shell. Capabilty to parse
these into python lists was added to wxflow in an accompanying PR.
To accomodate the new segment metatasks that must be run serially,
the capability of `create_task()` was expanded to allow a dictionary
key of `is_serial`, which controls whether a metatask is parallel or
serial using pre-existing capability in rocoto. The default when not
given is parallel (i.e. most metatasks).
Resolves NOAA-EMC#2274
Refs NOAA-EMC/wxflow#39
DavidHuber-NOAA
pushed a commit
to NOAA-EMC/global-workflow
that referenced
this pull request
Aug 12, 2024
Adds the ability to run a forecast in segments instead of all at once. To accomplish this, a new local `checkpnts` variable is introduced to `config.base` to contain a comma-separated list of intermediate stopping points for the forecast. This is combined with `FHMIN_GFS` and `FHMAX_GFS` to create a comma-separated string `FCST_SEGMENTS` with all the start/end points that is used by `config.fcst` and rocoto workflow. Capability to parse these into python lists was added to wxflow in an accompanying PR. If `checkpnts` is an empty string, this will result in a single-segment forecast. To accommodate the new segment metatasks that must be run serially, the capability of `create_task()` was expanded to allow a dictionary key of `is_serial`, which controls whether a metatask is parallel or serial using pre-existing capability in rocoto. The default when not given is parallel (i.e. most metatasks). Resolves #2274 Refs NOAA-EMC/wxflow#39 Refs NOAA-EMC/wxflow#40
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
Add this suggestion to a batch that can be applied as a single commit.
This suggestion is invalid because no changes were made to the code.
Suggestions cannot be applied while the pull request is closed.
Suggestions cannot be applied while viewing a subset of changes.
Only one suggestion per line can be applied in a batch.
Add this suggestion to a batch that can be applied as a single commit.
Applying suggestions on deleted lines is not supported.
You must change the existing code in this line in order to create a valid suggestion.
Outdated suggestions cannot be applied.
This suggestion has been applied or marked resolved.
Suggestions cannot be applied from pending reviews.
Suggestions cannot be applied on multi-line comments.
Suggestions cannot be applied while the pull request is queued to merge.
Suggestion cannot be applied right now. Please check back later.
Description
Adds parsing of a comma-separated list to a python list to Configuration.
In support of NOAA-EMC/global-workflow#2274
Type of change
How Has This Been Tested?
Checklist