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Rui Xue dcdc25f5864de66ed9439e9616e842f62570842c m
PIPE-3120: Fix uvrange type bug from PIPE-1729 and add informative logging
- Convert fieldidstring to int before passing to uvrange() to match the expected field_id: int parameter.
- Add info-level logging to show what UV range constraint is returned, including field_id for context.
- Change exception message from warning to info level with friendlier tone. -
Rui Xue 605606d76dad6bdf8cedc83737d77a8f8b9ade8d m
PIPE-3120: Refactor uvrange function and streamline fluxboot execution logic
-
Rui Xue 21d085a87dab455818002f71afc4dca7b4624f8b m
PIPE-3120: Remove unused spw_id parameter from `uvrange()`; fix field_id type bugs
- Remove unused spw_id parameter and update docstring
- Fix type bugs in `fluxboot.py` where field_id passed as string
instead of int to `uvrange()`
- Improve error handling in `uvrange()` with early return and
logging for better debuggability -
Rui Xue 8e1c9969ff0bf20928f50aa9079aa3163f0381ed m
PIPE-3120: Fix uvrange constraint handling in fluxboot gaincal
Apply UV range constraints from flux.csv in the _do_gaincal else
branch when processing specific calibrator fields. Previously, this
code path left uvrange as empty string, ignoring point-source
constraints that should exclude extended baselines.
Add defensive logging for multiple field matches and missing fields
to aid debugging. -
Rui Xue 64967c159b1d1a0822c427f5debfc852ba8d8775 m
Pull request #1934: PIPE-2738 improve docs for MAIN part2
Merge in PIPE/pipeline from PIPE-2738-improve-docs-for-MAIN-part2 to main
* commit 'd95f88f211e69f9622ec4088aabf9f8e72aa0c39':
PIPE-2738: Modernize GitHub Pages deployment with official GitHub actions
PIPE-2738: Fix pixi task parsing: reorder inline tasks before subsections
PIPE-2738: disable auto-parentheses and use tilde trick for CLI task links
PIPE-2738: Add some missed words back to `hif_applycal` -
Rui Xue d95f88f211e69f9622ec4088aabf9f8e72aa0c39 m
PIPE-2738: Modernize GitHub Pages deployment with official GitHub actions
Replace third-party `peaceiris/actions-gh-pages` with official
`actions/upload-pages-artifact` and `actions/deploy-pages`. Update permissions
to use pages:write + id-token:write and add deployment environment tracking.
Eliminates automatic gh-pages branch creation. -
Rui Xue 7b5c360b11a10081908366edfedf9040c9ce32b4 m
PIPE-2738: Fix pixi task parsing: reorder inline tasks before subsections
Move all inline task definitions before subsection definitions to comply
with TOML structure requirements. Fixes missing test tasks (test-unit,
test-regression, test-pltest1) in pixi task list. -
Rui Xue 4f0fceefecc5ea193c434a78ea97d097baa3d807 m
PIPE-2738: disable auto-parentheses and use tilde trick for CLI task links
Set `add_function_parentheses = False` in `docs/source/conf.py` to
prevent Sphinx from automatically appending `()` to all function and
method cross-references across the documentation.
Additionally, updated all CLI task docstrings across the pipeline
(`pipeline/h*/cli/*.py`) to use the Sphinx tilde shorthand
(`:func:~pipeline.pkg.cli.task_name`). This replaces the verbose explicit
text alias format, keeping the source code clean while ensuring the
generated links correctly resolve to their fully qualified paths and
render without parentheses.- docs/source/conf.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/h/cli/h_init.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/h/cli/h_tsyscal.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hif/cli/hif_antpos.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hif/cli/hif_checkproductsize.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hif/cli/hif_editimlist.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hif/cli/hif_findcont.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hif/cli/hif_makeimages.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hif/cli/hif_makeimlist.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hif/cli/hif_selfcal.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hif/cli/hif_setmodels.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hif/cli/hif_uvcontsub.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hifa/cli/hifa_antpos.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hifa/cli/hifa_bandpass.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hifa/cli/hifa_bandpassflag.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hifa/cli/hifa_diffgaincal.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hifa/cli/hifa_exportdata.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hifa/cli/hifa_flagdata.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hifa/cli/hifa_fluxcalflag.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hifa/cli/hifa_gfluxscale.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hifa/cli/hifa_gfluxscaleflag.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hifa/cli/hifa_lock_refant.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hifa/cli/hifa_polcalflag.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hifa/cli/hifa_renorm.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hifa/cli/hifa_restoredata.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hifa/cli/hifa_session_refant.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hifa/cli/hifa_spwphaseup.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hifa/cli/hifa_timegaincal.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hifa/cli/hifa_tsysflag.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hifa/cli/hifa_tsysflagcontamination.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hsd/cli/hsd_atmcor.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hsd/cli/hsd_baseline.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
- pipeline/hsd/cli/hsd_imaging.py (version 4f0fceefecc5ea193c434a78ea97d097baa3d807) (diffs)
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Remy Indebetouw <remy@virginia.edu> 42d0fc117ddf45dae7fe08789b48078ba5ae317a m
PIPE-2738: Add some missed words back to `hif_applycal`
# Please enter the commit message for your changes. Lines starting
# with '#' will be kept; you may remove them yourself if you want to.
# An empty message aborts the commit.
#
# Author: Remy Indebetouw <remy@virginia.edu>
# Date: Wed Aug 12 21:39:26 2026 -0400
#
# interactive rebase in progress; onto 2f87b8c4e
# Last command done (1 command done):
# reword f7c3f6078 # add some words back to hif_applycal
# Next command to do (1 remaining command):
# pick de412898e PIPE-2738: disable auto-parentheses and use tilde trick for CLI task links
# You are currently editing a commit while rebasing branch 'PIPE-2738-improve-docs-for-MAIN-part2' on '2f87b8c4e'.
#
# Changes to be committed:
# modified: pipeline/hif/cli/hif_applycal.py
# -
Rui Xue 2f87b8c4e4838b7a0fd72e87100d24710cf43fa3 m
Pull request #1931: PIPE-3196: migrate the changes of PIPE-3150/PIPE-3162/PIPE-3191 to MAIN
Merge in PIPE/pipeline from PIPE-3196-clone-PIPE-3150-3162-to-main to main
* commit 'b8400037f84cab6544bf92d482bcbe93d5c48fa7': (21 commits)
PIPE-3196/PIPE-3191: Refactor `tmp_dir` to use relative paths
PIPE-3196/PIPE-3162: Optimize memory footprint by removing advanced indexing copies in Stokes I extraction
PIPE-3196/PIPE-3162: Refactor findroi parallel-hand correlation extraction by reading `POLARIZATION` table directly and support RR/LL
PIPE-3196/PIPE-3162: Use the correct data type selection
PIPE-3196/PIPE-3150: Clip absorption evidence display
PIPE-3196/PIPE-3150: Plot absorption evidence with original sign
PIPE-3196/PIPE-3150: Rename ROI ranges column
PIPE-3196/PIPE-3150: Update FindROI thresholds and evidence
PIPE-3196/PIPE-3150: Refine FindROI supporting plots
PIPE-3196/PIPE-3150: Format displayed ROI ranges
PIPE-3196/PIPE-3150: Update FindROI QA scoring
PIPE-3196/PIPE-3150: Show positive ROI ranges
PIPE-3196/PIPE-3150: Fix findroi plot font sizing
PIPE-3196/PIPE-3150: Tune findroi evidence layout
PIPE-3196/PIPE-3150: Refine findroi evidence plots
PIPE-3196/PIPE-3150: Split findroi plots by SPW
PIPE-3196/PIPE-3150: Restructure findroi summary
PIPE-3196/PIPE-3150: Improve hif_findroi weblog view
PIPE-3196/PIPE-3162: Form Stokes I in hif_findroi
PIPE-3196/PIPE-3162: Relax findroi min channel sanity check
... -
Rui Xue 9a66e1658f3057702f7a73d6b46c5d6eae3f90d7 m
Pull request #1928: PIPE-3197: clone PIPE-3159 to main
Merge in PIPE/pipeline from PIPE-3197-clone-pipe-3159-to-main to main
* commit 'fcffd076b446543d4590c39321000e16eda94c57':
PIPE-3197: Codestyle updates
PIPE-3197/PIPE-3159: expose additional findcont imaging parameters
PIPE-3197/PIPE-3159: clarify findcont imaging banner
PIPE-3197/PIPE-3159: refine findcont weblog layout
PIPE-3197/PIPE-3159: expose hif_findcont imaging in weblog -
Federico Montesino Pouzols a4cd62e66e125035a0cd4c98dedc2bc6303e37b5 m
Pull request #1888: PIPE-3023 flagdeteralma load partialpols alma loop loads flag column using tbtool.getcol
Merge in PIPE/pipeline from PIPE-3023-flagdeteralma-load_partialpols_alma-loop-loads-flag-column-using-tbtool.getcol to main
* commit '6bd22f4018437b6a63de1838abf7e9a28c4d3a03':
PIPE-3023: move taql query out of try, add unit test, fixes from review
PIPE-3023: adapt flagdeteralma unit tests for updated implementation
PIPE-3023: use TaQL query to implement the partialpol logic
PIPE-3023: fix info message about lowtrans -
Rui Xue a563feecea60971977ed1de45265e4a0e7483541 m
Pull request #1933: PIPE-3177: clone add spw filitering to max cube size step
Merge in PIPE/pipeline from PIPE-3177-clone-add-spw-filitering-to-max-cube-size-step to main
* commit 'f671e7e457b16131ecd95f33bf51fe8ebfdc154a':
PIPE-3127: style cleanup — lazy logging, PEP 8
cleaned message formatting slightly. moved the creation of overlimit_spws and oversize_spws out of the conditional blocks, so that they can always be printed to the log - I found this quite useful to debug and understand what was going on.
PIPE-3127 added spws reassign after field mitigation
PIPE-3127 moved large cube message trigger
fixing the two more impactful issues found by Ryan; the confusing message still needs to be dealt with
PIPE-3127 refactor mitigation to move step 1 error later into spw building loop and add supporting changes
PIPE-3127 edited the clause to only mitigate spws if less than the maxcubelimit at the end of step 1
PIPE-3127 step one added spw filter and supporting code changes cubesizes now returned as a dict -
Rui Xue c4b6900316e89fecb4f00f35d03c4181adce3abb m
Pull request #1927: PIPE-2738: improve docs for `MAIN` (part1)
Merge in PIPE/pipeline from docs/PIPE-2738-improve-docs-for-MAIN to main
* commit 'b2f166936faa9be35cab37335b22e6943bbaac9f': (29 commits)
PIPE-2738: Reorganize pixi tasks, add warning suppression, rename `CASA_MPI_NPROCS` to `CASA_NPROCS`
PIPE-2738: Drop CASA 6.7.5, promote 6.7.6 to latest, add 6.7.7 support
PIPE-2738: Document two new procedure recipes
PIPE-2738: Changed front page to list table with table notes and added the link to Nobeyama Pipeline Users' Guide
PIPE-2738: update processing environment screenshots in weblog guide
PIPE-2738: fix parameter linking on CLI task pages
PIPE-2738: clarify QA score bounds and add colors in pipeline-weblog
PIPE-2738: Add `toc_sections` extension for CLI task page navigation
PIPE-2738: Updates following the feedbacks from Luke and Kotomi
PIPE-2738: Update documentation author to 'Pipeline Contributors'
PIPE-2738: Update documentation links to `ra-pipeline1 upstream
PIPE-2738: Fix Sphinx image scaling errors in CLI docstrings
PIPE-2738: Convert Markdown tables to `list-table` directives in User Guide
PIPE-2738: Apply drop-shadow to Markdown lightbox images
PIPE-2738: Style figure captions to distinguish them from body text
PIPE-2738: Remove redundant `Returns1 sections and add missing type hints in CLI tasks
PIPE-2738: Improve image visibility with drop shadows and click-to-zoom lightboxes
PIPE-2738: Improve organization and completeness of Common Task Functionality in `hif_makeimages`
PIPE-2738: Migrate additional ALMA Pipeline User Guide content of `hif_checkproductsize`, `hif_makeimages`, and `hif_makeimlist`, to CLI task docstrings
PIPE-2738: Update `hifa_diffgaincal` docstring with additional content and figures from User's Guide
... -
Rui Xue 86549d250149fee6243df27e44acd50a817b2ff4 m
PIPE-2738: Document two new procedure recipes
Add `procedure_hifa_polimage.xml` and `procedure_hifv_nofluxcal.xml`
to `recipes.md` with corresponding JIRA tickets. -
Rui Xue b2f166936faa9be35cab37335b22e6943bbaac9f m
PIPE-2738: Reorganize pixi tasks, add warning suppression, rename `CASA_MPI_NPROCS` to `CASA_NPROCS`
- Restructure [tool.pixi.tasks] with clear section headers (Simple/Complex/Testing)
- Add `PYTHONWARNINGS=ignore::SyntaxWarning` to `casa` and `casampi` tasks
- Rename `CASA_MPI_NPROCS` to `CASA_NPROCS` (more generic, HPC standard)
- Remove deprecated `fetch-casarundata` task (CASA auto-initializes)
- Update documentation to match task reorganization and variable rename -
Rui Xue e1110f6205e855f7326017d346c309a93e7f8cde m
PIPE-2738: Drop CASA 6.7.5, promote 6.7.6 to latest, add 6.7.7 support
- Update pixi features: casa675→casa676, add casa677-py312/py313
- Promote 6.7.6 to "latest release branch", 6.7.7 to "master branch"
- Update test CI matrix to cover 6.7.4, 6.7.6, 6.7.7 (all Python variants)
- Update documentation environment table and examples
- Remove deprecated casa671-py312 references- .github/workflows/test-unit-pixi.yml (version e1110f6205e855f7326017d346c309a93e7f8cde) (diffs)
- docs/source/devel/setup/pixi_tasks.md (version e1110f6205e855f7326017d346c309a93e7f8cde) (diffs)
- pixi.lock (version e1110f6205e855f7326017d346c309a93e7f8cde) (diffs)
- pyproject.toml (version e1110f6205e855f7326017d346c309a93e7f8cde) (diffs)
-
Remy Indebetouw <remy@virginia.edu> 43ac5e9f012cf218e6f29393eb48e2864d8fd308 m
PIPE-2738: Changed front page to list table with table notes and added the link to Nobeyama Pipeline Users' Guide
# Please enter the commit message for your changes. Lines starting
# with '#' will be kept; you may remove them yourself if you want to.
# An empty message aborts the commit.
#
# Author: Remy Indebetouw <remy@virginia.edu>
# Date: Wed Aug 12 13:15:43 2026 -0400
#
# interactive rebase in progress; onto eb4a7dd24
# Last commands done (30 commands done):
# pick 09f4778d8 PIPE-2738: update processing environment screenshots in weblog guide
# reword 83b481d98 # changed front page to list table with table notes added Nobeyama
# Next commands to do (3 remaining commands):
# pick 22c242bad PIPE-2738: Document two new procedure recipes
# pick f2bae51a3 PIPE-2738: Drop CASA 6.7.5, promote 6.7.6 to latest, add 6.7.7 support
# You are currently editing a commit while rebasing branch 'docs/PIPE-2738-improve-docs-for-MAIN' on 'eb4a7dd24'.
#
# Changes to be committed:
# modified: docs/README.rst
# modified: docs/source/index.rst
# modified: docs/source/users_guide/hifa_polcalimage-recipe.md
# modified: docs/source/users_guide/index.md
#- docs/README.rst (version 43ac5e9f012cf218e6f29393eb48e2864d8fd308) (diffs)
- docs/source/index.rst (version 43ac5e9f012cf218e6f29393eb48e2864d8fd308) (diffs)
- docs/source/users_guide/hifa_polcalimage-recipe.md (version 43ac5e9f012cf218e6f29393eb48e2864d8fd308) (diffs)
- docs/source/users_guide/index.md (version 43ac5e9f012cf218e6f29393eb48e2864d8fd308) (diffs)
-
Rui Xue 84450a215555312ebf7e4cb7b45e5c3cf4b7e12d m
PIPE-2738: update processing environment screenshots in weblog guide
Replace the single, lower-resolution `processing_env_2024.png` with two new,
higher-resolution screenshots (`weblog_runtime_env1.png` and `weblog_runtime_env2.png`)
for the Processing Environment popup window.
The layout is updated to display the two images side-by-side using an HTML
flexbox container and Sphinx `image` directives to ensure they are properly
sized, centered, and readable.
Refs: PIPE-2738- docs/source/users_guide/pipeline-weblog.md (version 84450a215555312ebf7e4cb7b45e5c3cf4b7e12d) (diffs)
- docs/source/users_guide/processing_env_2024.png (version 84450a215555312ebf7e4cb7b45e5c3cf4b7e12d) (diffs)
- docs/source/users_guide/weblog_runtime_env1.png (version 84450a215555312ebf7e4cb7b45e5c3cf4b7e12d) (diffs)
- docs/source/users_guide/weblog_runtime_env2.png (version 84450a215555312ebf7e4cb7b45e5c3cf4b7e12d) (diffs)
-
Rui Xue ce8fbe47c34a737699567ac2b056da85a383da80 m
PIPE-2738: clarify QA score bounds and add colors in pipeline-weblog
- Replace ambiguous ">0.90-1.00" score range notation with explicit mathematical inequalities (e.g., $0.90 < S \leq 1.00$) for clarity.
- Apply inline CSS styling to colorize the color names (Green, Blue, Yellow, Red) in the QA score table and the prose text below it.
Refs: PIPE-2738 -
Rui Xue 84be22aba94949b7ad396854e12ca2ae768664cb m
PIPE-2738: Add `toc_sections` extension for CLI task page navigation
Add `toc_sections.py` to promote docstring Parameters/Notes/Examples into
real docutils sections with anchor IDs, injecting them into the Furo
right-hand TOC for easier navigation on long CLI task pages. Only injects
entries for sections that actually exist in each task's docstring.
Also adds CSS to style the promoted headings as subtle labels. -
Rui Xue 2731cabb4642a4174cfe00a01046e960df454df2 m
PIPE-2738: fix parameter linking on CLI task pages
Update `parameter_linking.py` to find parameter documentation even after it
has been promoted to a separate `<section id="parameters">` by the
toc_sections extension. This restores the automatic insertion of anchor links
and bold colons for parameter lists on CLI task pages. -
Rui Xue fd3c1eb9ee0ecd9e64f46112f5724f7de52dd124 m
PIPE-2738: Improve image visibility with drop shadows and click-to-zoom lightboxes
- Added a subtle drop shadow and border in `custom_theme.css` to help embedded screenshots and figures stand out clearly against the page background.
- Enabled the `sphinxcontrib-lightbox2` Sphinx extension (via `conf.py` and `requirements_docs.txt`) to allow users to click and expand images into full-screen overlays.
- Updated `pixi.lock` to lock the new Sphinx extension and refresh environment dependencies.- docs/source/_static/custom_theme.css (version fd3c1eb9ee0ecd9e64f46112f5724f7de52dd124) (diffs)
- docs/source/conf.py (version fd3c1eb9ee0ecd9e64f46112f5724f7de52dd124) (diffs)
- pixi.lock (version fd3c1eb9ee0ecd9e64f46112f5724f7de52dd124) (diffs)
- requirements_docs.txt (version fd3c1eb9ee0ecd9e64f46112f5724f7de52dd124) (diffs)
-
Rui Xue 21b93cf8102fcca508e327468e9391ee45b2dbc5 m
PIPE-2738: Style figure captions to distinguish them from body text
-
Rui Xue 646b9f46f67698487801b859e7ac20deeae52363 m
PIPE-2738: Remove redundant `Returns1 sections and add missing type hints in CLI tasks
- Stripped duplicate `Returns:` sections from 42 wrapped CLI task docstrings across the `h`, `hif`, `hifa`, and `hsdn` modules. This ensures Sphinx's `autodoc_typehints='description'` generates exactly one "Return type:" entry per task without duplication.
- Added missing Python return type hints (`-> launcher.Context` and `-> None`) to the signatures of unwrapped standard functions (`h_resume`, `h_weblog`, and `h_show_calstate`) so their return types are correctly scraped and populated in the HTML documentation.- pipeline/h/cli/h_export_calstate.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/h/cli/h_exportdata.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/h/cli/h_import_calstate.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/h/cli/h_mssplit.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/h/cli/h_restoredata.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/h/cli/h_resume.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/h/cli/h_save.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/h/cli/h_show_calstate.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/h/cli/h_weblog.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/h/cli/utils.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hif/cli/hif_editimlist.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hif/cli/hif_gaincal.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hif/cli/hif_lowgainflag.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hif/cli/hif_makecutoutimages.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hif/cli/hif_mstransform.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_antpos.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_bandpass.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_bpsolint.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_diffgaincal.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_exportdata.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_flagdata.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_flagtargets.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_fluxcalflag.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_gaincalsnr.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_gfluxscale.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_gfluxscaleflag.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_imageprecheck.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_importdata.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_lock_refant.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_polcal.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_polcalflag.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_renorm.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
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- pipeline/hifa/cli/hifa_session_refant.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_spwphaseup.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_targetflag.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_timegaincal.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_tsysflag.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_tsysflagcontamination.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_unlock_refant.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_wvrgcal.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hifa/cli/hifa_wvrgcalflag.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hsdn/cli/hsdn_exportdata.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
- pipeline/hsdn/cli/hsdn_importdata.py (version 646b9f46f67698487801b859e7ac20deeae52363) (diffs)
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Rui Xue 03c7108c1c8fc847ba73b202a463d9f4672bd9e9 m
PIPE-2738: Update `hifa_diffgaincal` docstring with additional content and figures from User's Guide
- Migrated extended explanations and context from Section 9.21 of the ALMA Pipeline User's Guide to the `hifa_diffgaincal` CLI docstring.
- Added phase offset and residual weblog plots side-by-side (matching the PDF layout) and retained their original LaTeX filenames for traceability.
- Clarified the residual offset evaluation criteria and elaborated on the low-SNR heuristics logic.
- Fixed a Sphinx layout issue by adding a title to the `list-table` directive, preventing the `docstring_inheritance` parser from mistakenly treating the table as a new section header and mangling the `Args:` injection.- docs/source/figures/uid___A002_X116120b_X2d3a.ms.hifa_diffgaincal.s17_3.spw45_47_49_51_53_55_57_59.solintinf.gpcal.tbl-spw47-TARGET_CHECK-phase_vs_time.png (version 03c7108c1c8fc847ba73b202a463d9f4672bd9e9) (diffs)
- docs/source/figures/uid___A002_X116120b_X2d3a.ms.hifa_diffgaincal.s17_5.spw45_47_49_51_53_55_57_59.solintinf.gpcal.tbl-spw55-phase_vs_time.png (version 03c7108c1c8fc847ba73b202a463d9f4672bd9e9) (diffs)
- pipeline/hifa/cli/hifa_diffgaincal.py (version 03c7108c1c8fc847ba73b202a463d9f4672bd9e9) (diffs)
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Remy Indebetouw <remy@virginia.edu> 2753937d6db1c0ee93e5e989284956c90747ead4 m
PIPE-2738: Updates following the feedbacks from Luke and Kotomi
# Please enter the commit message for your changes. Lines starting
# with '#' will be kept; you may remove them yourself if you want to.
# An empty message aborts the commit.
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# Author: Remy Indebetouw <remy@virginia.edu>
# Date: Wed Aug 12 09:13:29 2026 -0400
#
# interactive rebase in progress; onto eb4a7dd24
# Last commands done (25 commands done):
# pick 374814ec7 PIPE-2738: Update documentation author to 'Pipeline Contributors'
# reword 156497df7 # changes from luke and kotomi
# Next commands to do (8 remaining commands):
# pick 9a2f85107 PIPE-2738: Add `toc_sections` extension for CLI task page navigation
# pick f607042e2 PIPE-2738: clarify QA score bounds and add colors in pipeline-weblog
# You are currently editing a commit while rebasing branch 'docs/PIPE-2738-improve-docs-for-MAIN' on 'eb4a7dd24'.
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# Changes to be committed:
# modified: pipeline/hifa/cli/hifa_diffgaincal.py
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Rui Xue 4949ded1bbc3fb3dc295d8af0c231449e43af71f m
PIPE-2738: Migrate additional ALMA Pipeline User Guide content of `hif_checkproductsize`, `hif_makeimages`, and `hif_makeimlist`, to CLI task docstrings
- hif_checkproductsize: Migrated Section 9.34, detailing size calculations, the step-by-step mitigation cascade, QA scoring, and embedded example screenshot (guide-img028.png).
- hif_makeimages: Migrated Sections 9.28, 9.30, 9.32, 9.41, 9.42, 9.44, 9.46, and 9.48. Added scenario-based structure, dynamic range correction tables, QA notes, and embedded multiple figures.
- hif_makeimlist: Migrated Sections 9.27, 9.29, 9.31, 9.38, 9.43, 9.45, and 9.47, with a scenario-based structure and embedded weblog screenshot.- docs/source/figures/guide-img010.png (version 4949ded1bbc3fb3dc295d8af0c231449e43af71f) (diffs)
- docs/source/figures/guide-img026.png (version 4949ded1bbc3fb3dc295d8af0c231449e43af71f) (diffs)
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- docs/source/figures/guide-img031.png (version 4949ded1bbc3fb3dc295d8af0c231449e43af71f) (diffs)
- docs/source/figures/guide-img033_2022.png (version 4949ded1bbc3fb3dc295d8af0c231449e43af71f) (diffs)
- docs/source/figures/polcal_imaging.png (version 4949ded1bbc3fb3dc295d8af0c231449e43af71f) (diffs)
- docs/source/figures/psfphasecenter.png (version 4949ded1bbc3fb3dc295d8af0c231449e43af71f) (diffs)
- pipeline/hif/cli/hif_checkproductsize.py (version 4949ded1bbc3fb3dc295d8af0c231449e43af71f) (diffs)
- pipeline/hif/cli/hif_makeimages.py (version 4949ded1bbc3fb3dc295d8af0c231449e43af71f) (diffs)
- pipeline/hif/cli/hif_makeimlist.py (version 4949ded1bbc3fb3dc295d8af0c231449e43af71f) (diffs)
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Rui Xue 71780bf53070f8f69a4494e163085df7af6b14e8 m
PIPE-2738: Update documentation links to `ra-pipeline1 upstream
-
Rui Xue 12b07190f86b2a3cce5319817efeadb952d39bba m
PIPE-2738: Fix Sphinx image scaling errors in CLI docstrings
Replaced `:scale:` with `:width:` in `.. figure::` directives across 19 CLI task docstrings. This circumvents a known Sphinx/Pillow limitation where attempting to read original image files from disk for dynamic scaling fails with a `FileNotFoundError` when triggered from generated `autosummary` stubs. This resolves the image build warnings while retaining identical visual output in the HTML docs.- pipeline/hif/cli/hif_findcont.py (version 12b07190f86b2a3cce5319817efeadb952d39bba) (diffs)
- pipeline/hif/cli/hif_selfcal.py (version 12b07190f86b2a3cce5319817efeadb952d39bba) (diffs)
- pipeline/hifa/cli/hifa_bandpass.py (version 12b07190f86b2a3cce5319817efeadb952d39bba) (diffs)
- pipeline/hifa/cli/hifa_bandpassflag.py (version 12b07190f86b2a3cce5319817efeadb952d39bba) (diffs)
- pipeline/hifa/cli/hifa_diffgaincal.py (version 12b07190f86b2a3cce5319817efeadb952d39bba) (diffs)
- pipeline/hifa/cli/hifa_gfluxscale.py (version 12b07190f86b2a3cce5319817efeadb952d39bba) (diffs)
- pipeline/hifa/cli/hifa_polcal.py (version 12b07190f86b2a3cce5319817efeadb952d39bba) (diffs)
- pipeline/hifa/cli/hifa_renorm.py (version 12b07190f86b2a3cce5319817efeadb952d39bba) (diffs)
- pipeline/hifa/cli/hifa_spwphaseup.py (version 12b07190f86b2a3cce5319817efeadb952d39bba) (diffs)
- pipeline/hifa/cli/hifa_targetflag.py (version 12b07190f86b2a3cce5319817efeadb952d39bba) (diffs)
- pipeline/hifa/cli/hifa_timegaincal.py (version 12b07190f86b2a3cce5319817efeadb952d39bba) (diffs)
- pipeline/hifa/cli/hifa_tsysflagcontamination.py (version 12b07190f86b2a3cce5319817efeadb952d39bba) (diffs)
- pipeline/hifa/cli/hifa_wvrgcalflag.py (version 12b07190f86b2a3cce5319817efeadb952d39bba) (diffs)
- pipeline/hsd/cli/hsd_applycal.py (version 12b07190f86b2a3cce5319817efeadb952d39bba) (diffs)
- pipeline/hsd/cli/hsd_baseline.py (version 12b07190f86b2a3cce5319817efeadb952d39bba) (diffs)
- pipeline/hsd/cli/hsd_imaging.py (version 12b07190f86b2a3cce5319817efeadb952d39bba) (diffs)
- pipeline/hsd/cli/hsd_importdata.py (version 12b07190f86b2a3cce5319817efeadb952d39bba) (diffs)
- pipeline/hsd/cli/hsd_k2jycal.py (version 12b07190f86b2a3cce5319817efeadb952d39bba) (diffs)
- pipeline/hsd/cli/hsd_skycal.py (version 12b07190f86b2a3cce5319817efeadb952d39bba) (diffs)
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Rui Xue 5ada67893520013259eb383f9aa267ed6f34815d m
PIPE-2738: Apply drop-shadow to Markdown lightbox images
Extended the custom CSS drop-shadow styling in `custom_theme.css` to target `a[data-lightbox] img`. This ensures that screenshots embedded in MyST Markdown files (which use the Sphinx lightbox extension) receive the same consistent border and shadow effect as images embedded via standard Sphinx `.. figure::` directives. -
Rui Xue 693063e5a48da06ae80221ead33ea077c0de5c6b m
PIPE-2738: Convert Markdown tables to `list-table` directives in User Guide
Converted the standard Markdown tables in `pipeline-versions-and-documentation.md`, `pipeline-weblog.md`, and `weights.md` to Sphinx `{list-table}` directives. This ensures consistent table rendering and alignment across the Sphinx documentation, and enables the application of custom CSS classes (like `small-font-table`) to maintain a clean, compact visual style.- docs/source/users_guide/pipeline-versions-and-documentation.md (version 693063e5a48da06ae80221ead33ea077c0de5c6b) (diffs)
- docs/source/users_guide/pipeline-weblog.md (version 693063e5a48da06ae80221ead33ea077c0de5c6b) (diffs)
- docs/source/users_guide/weights.md (version 693063e5a48da06ae80221ead33ea077c0de5c6b) (diffs)
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Rui Xue 9e9d46b44ddc226bd893d7dbbadf9c744f9bb75b m
PIPE-2738: Update documentation author to 'Pipeline Contributors'
Replace outdated 'Pipeline Dev. Team' with inclusive wording. -
Rui Xue cdb9ddeeccd165ffdcbacd7fc5a42dfc93840bf2 m
PIPE-2738: Improve organization and completeness of Common Task Functionality in `hif_makeimages`
- Expanded descriptions for Image Coordinates, Full Polarization IQUV Imaging, and Automatic Clean Boxes (Automasking) to include full details from Section 9.41 of the LaTeX Guide.
- Prevented Sphinx layout issues by rephrasing the "Common Task Functionality" header without a trailing colon, ensuring the `docstring_inheritance` parser correctly identifies section boundaries and injects the Parameters list at the correct location. -
Remy Indebetouw <remy@virginia.edu> aedc68351e5e92b6751050da4b12b6d09853b7c6 m
PIPE-2738: Added the initial draft of the full User's guide
# Please enter the commit message for your changes. Lines starting
# with '#' will be kept; you may remove them yourself if you want to.
# An empty message aborts the commit.
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# Author: Remy Indebetouw <remy@virginia.edu>
# Date: Tue Aug 11 10:55:42 2026 -0400
#
# interactive rebase in progress; onto eb4a7dd24
# Last commands done (13 commands done):
# squash e0e188f36 # fixed internal links, first programmatically, and then did a manual pass through the text. added sections created from recipes, listing the tasks in the recipe in order
# squash fbefb6990 # delete old files`
# Next commands to do (20 remaining commands):
# pick e67624278 PIPE-2738: Update `hifa_diffgaincal` docstring with additional content and figures from User's Guide
# pick bdad5e7cc PIPE-2738: Migrate additional ALMA Pipeline User Guide content of `hif_checkproductsize`, `hif_makeimages`, and `hif_makeimlist`, to CLI task docstrings
# You are currently rebasing branch 'docs/PIPE-2738-improve-docs-for-MAIN' on 'eb4a7dd24'.
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- docs/source/users_guide/timegaincal_bottomhalf.png (version aedc68351e5e92b6751050da4b12b6d09853b7c6) (diffs)
- docs/source/users_guide/tsys.png (version aedc68351e5e92b6751050da4b12b6d09853b7c6) (diffs)
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Rui Xue cb48af9b52894dfe58f5a985c4367904137f65b8 m
PIPE-2738: Enable `intersphinx` for automatic CASA task cross-referencing
Re-configure Sphinx intersphinx extension to automatically link CASA tasks
(e.g., mstransform, tclean) to CASAdocs documentation. Links are
automatically validated at build time. -
Remy Indebetouw bcdc480a386de2202fe5c148ca9aaba87b0daa58 m
PIPE-2738: Initial rearrangement of front page and `index.rst``
- Moved a couple of items to Dev section
- Added VLA refs link
- Added initial "helper" and "weights" users guide sections
# with '#' will be kept; you may remove them yourself if you want to.
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#
# Author: Remy Indebetouw <rindebet@nrao.edu>
# Date: Sun Aug 9 10:02:04 2026 -0400
#
# interactive rebase in progress; onto eb4a7dd24
# Last commands done (8 commands done):
# squash 91360e791 # initial "helper" and "weights" users guide sections
# squash 1ef877601 # minor edits; trying to figure out how to get auto-links to casa and PL tasks
# Next commands to do (25 remaining commands):
# pick 6fa687c26 PIPE-2738: Enable `intersphinx` for automatic CASA task cross-referencing
# pick b7a5297d5 Full User's guide - first attempt; needs red references updated.
# You are currently rebasing branch 'docs/PIPE-2738-improve-docs-for-MAIN' on 'eb4a7dd24'.
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- pipeline/hif/tasks/makeimages/makeimages.py (version bcdc480a386de2202fe5c148ca9aaba87b0daa58) (diffs)
-
Rui Xue 1f9675c38bc50fdf7245f6dd459f92573fbf9a4c m
PIPE-2738: Add clickable parameter anchors with auto-fading highlights
- Add clickable anchors to parameter names for easy URL copying
- Replace ' -- ' separator with bold ' : ' for visual clarity
- Flatten <p> tags to render descriptions inline while preserving section headers
- Add 3-second fade animation for highlighted parameters (GitHub-style) -
Rui Xue 5c050a5aa02ece1fc8f0b4ce0112457f7b3e7e8f m
PIPE-2738: Add docstring to `FindROIInputs`
- Add Args docstring to `FindROIInputs.__init__`
- Remove redundant Returns section from hif_findroi CLI function -
Rui Xue f671e7e457b16131ecd95f33bf51fe8ebfdc154a m
Merge remote-tracking branch 'origin/PIPE-3127-add-spw-filitering-to-max-cube-size-and-max-product-size-image-mitigation-steps' into PIPE-3177-clone-add-spw-filitering-to-max-cube-size-step
-
Rui Xue b8400037f84cab6544bf92d482bcbe93d5c48fa7 m
PIPE-3196/PIPE-3191: Refactor `tmp_dir` to use relative paths
-
Rui Xue 1510eed13986b5a2fed597888d11de4b07f669d7 m
PIPE-3196/PIPE-3162: Optimize memory footprint by removing advanced indexing copies in Stokes I extraction
-
Rui Xue f347fa1c55e3b2416fc12b46171cf8882001bcdb m
PIPE-3196/PIPE-3162: Refactor findroi parallel-hand correlation extraction by reading `POLARIZATION` table directly and support RR/LL
-
Rui Xue 0ee14157201db437ae3e416f49d87da4dd1bfcc0 m
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ryanaloomis <ryan.a.loomis@gmail.com> a9373c521f333f36248492cdf1a2ac1b4e13cf0e m
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ryanaloomis <ryan.a.loomis@gmail.com> 3449f1975ef1a2f1c0e2b1e586d0ca5ad0c4da4b m
PIPE-3196/PIPE-3150: Plot absorption evidence with original sign
-
ryanaloomis <ryan.a.loomis@gmail.com> 2e430c471cce62c31d4ec680ce1f951fc9ce8f26 m
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ryanaloomis <ryan.a.loomis@gmail.com> 987e43bf88faf3b6460ccb9b60427deb9b52266b m
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ryanaloomis <ryan.a.loomis@gmail.com> e81c8a96072384da02d6876dc8d4cf88953750be m
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ryanaloomis <ryan.a.loomis@gmail.com> b577c1178486a57cb0bee4c31585e718dbe93d7a m
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ryanaloomis <ryan.a.loomis@gmail.com> 9f59b103c4cda79e99c9e06ee524369a63a1f80c m
PIPE-3196/PIPE-3150: Update FindROI QA scoring
- pipeline/hif/heuristics/findroi.py (version 9f59b103c4cda79e99c9e06ee524369a63a1f80c) (diffs)
- pipeline/hif/tasks/findroi/findroi.py (version 9f59b103c4cda79e99c9e06ee524369a63a1f80c) (diffs)
- pipeline/hif/tasks/findroi/qa.py (version 9f59b103c4cda79e99c9e06ee524369a63a1f80c) (diffs)
- pipeline/hif/tasks/findroi/renderer.py (version 9f59b103c4cda79e99c9e06ee524369a63a1f80c) (diffs)
- pipeline/hif/tasks/findroi/resultobjects.py (version 9f59b103c4cda79e99c9e06ee524369a63a1f80c) (diffs)
- pipeline/hif/templates/findroi.mako (version 9f59b103c4cda79e99c9e06ee524369a63a1f80c) (diffs)
-
ryanaloomis <ryan.a.loomis@gmail.com> 429781578ef69fe474ead097503122d4607fe687 m
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ryanaloomis <ryan.a.loomis@gmail.com> ea3ee195b246fcd05b510c96245623c2a9baa286 m
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ryanaloomis <ryan.a.loomis@gmail.com> 463bb2944ac8235c728330657671b5cce6a9860a m
-
ryanaloomis <ryan.a.loomis@gmail.com> e7a43e7688bc33a94079503a52a2d6c5a0b46d56 m
PIPE-3196/PIPE-3150: Refine findroi evidence plots
- pipeline/hif/tasks/findroi/plots.py (version e7a43e7688bc33a94079503a52a2d6c5a0b46d56) (diffs)
- pipeline/hif/tasks/findroi/renderer.py (version e7a43e7688bc33a94079503a52a2d6c5a0b46d56) (diffs)
- pipeline/hif/templates/findroi.mako (version e7a43e7688bc33a94079503a52a2d6c5a0b46d56) (diffs)
- pipeline/infrastructure/renderer/logger.py (version e7a43e7688bc33a94079503a52a2d6c5a0b46d56) (diffs)
-
ryanaloomis <ryan.a.loomis@gmail.com> d2be1386bceb2e7ced6b73550dc8954b16d61c80 m
PIPE-3196/PIPE-3150: Split findroi plots by SPW
- pipeline/hif/heuristics/findroi.py (version d2be1386bceb2e7ced6b73550dc8954b16d61c80) (diffs)
- pipeline/hif/tasks/findroi/plots.py (version d2be1386bceb2e7ced6b73550dc8954b16d61c80) (diffs)
- pipeline/hif/tasks/findroi/renderer.py (version d2be1386bceb2e7ced6b73550dc8954b16d61c80) (diffs)
- pipeline/hif/templates/findroi.mako (version d2be1386bceb2e7ced6b73550dc8954b16d61c80) (diffs)
-
ryanaloomis <ryan.a.loomis@gmail.com> 910137d9b953ac71196e3184c981e51bd6d724ac m
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ryanaloomis <ryan.a.loomis@gmail.com> 18ad59d201ae77f6594c9e58c255dfca00994658 m
PIPE-3196/PIPE-3150: Improve hif_findroi weblog view
- pipeline/hif/heuristics/findroi.py (version 18ad59d201ae77f6594c9e58c255dfca00994658) (diffs)
- pipeline/hif/tasks/findroi/plots.py (version 18ad59d201ae77f6594c9e58c255dfca00994658) (diffs)
- pipeline/hif/tasks/findroi/renderer.py (version 18ad59d201ae77f6594c9e58c255dfca00994658) (diffs)
- pipeline/hif/templates/findroi.mako (version 18ad59d201ae77f6594c9e58c255dfca00994658) (diffs)
-
ryanaloomis <ryan.a.loomis@gmail.com> 71cd09a1109ed1c6ca2ad1d2bdb0455ef6c57095 m
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ryanaloomis <ryan.a.loomis@gmail.com> 507055c85650804a861d04acae132c161683491d m
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ryanaloomis <ryan.a.loomis@gmail.com> c1bfbe20ffadb02d25bcb3455b981eef06e66e06 m
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Rui Xue fcffd076b446543d4590c39321000e16eda94c57 m
PIPE-3197: Codestyle updates
- Convert ImagingStatus to `Enum` for type-safe status constants
- Add type hints (PEP 604/585) to all helper functions
- Replace f-string logging with lazy formatting
- Implement robust regex-based "ppb" string parsing
- Add NaN/infinity handling in float formatting
- Improve docstrings (Google Style) with Args/Returns
- Wrap long lines to comply with 120-char limit -
ryanaloomis <ryan.a.loomis@gmail.com> 5da35a12c416c542f46a347aec6582765d750207 m
PIPE-3197/PIPE-3159: expose additional findcont imaging parameters
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ryanaloomis <ryan.a.loomis@gmail.com> a63be2f6b532bd37258b59b47826235c36fe2d1f m
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ryanaloomis <ryan.a.loomis@gmail.com> 9f3cf43c586c039408a9f15e99fff696765ef5cf m
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ryanaloomis <ryan.a.loomis@gmail.com> 9c7434e2f29d32998a27990c1785dc376d3c0e6b m
PIPE-3197/PIPE-3159: expose hif_findcont imaging in weblog
- pipeline/hif/tasks/findcont/findcont.py (version 9c7434e2f29d32998a27990c1785dc376d3c0e6b) (diffs)
- pipeline/hif/tasks/findcont/renderer.py (version 9c7434e2f29d32998a27990c1785dc376d3c0e6b) (diffs)
- pipeline/hif/tasks/findcont/resultobjects.py (version 9c7434e2f29d32998a27990c1785dc376d3c0e6b) (diffs)
- pipeline/hif/templates/findcont.mako (version 9c7434e2f29d32998a27990c1785dc376d3c0e6b) (diffs)
-
Rui Xue eb4a7dd244954c4ab2f0085b6af7c66ce147ff02 m
PIPE-2738: Update Pixi installation version to v0.71.0 in Read the Docs configuration
-
Rui Xue bea3db71ad368b49bc53f5c20dc0807e39fa7004 m
PIPE-2738: Update `pixi.lock`
-
Rui Xue da4fe50a41df892c6ad4401327a99dc9ec87abc6 m
PIPE-2738: Upgrade Pixi to v0.71.0 for Rich Platforms syntax support
- Update GitHub Actions workflow to use pixi v0.71.0
- Document minimum Pixi version requirement
- Restore inline platform constraint syntax in `pyproject.toml` -
Rui Xue d25c830b97692313e0caae561668df7d7ea6459a m
PIPE-2738: Migrate pixi config from deprecated system-requirements to platforms
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Rui Xue 9e7f93bbd3d4b8b463c977c61dbc9d0b131d2166 m
Pull request #1924: PIPE-3193: Refactor `select_tsys_field` identifier handling
Merge in PIPE/pipeline from PIPE-3193-clone-pipe-3175-pr2 to main
* commit '6e0dbf6d7de09c39ce9ba1db0cf9010fb1001dd0':
PIPE-3193: Add test case for numeric field names with CASA-convention auto-quoting
PIPE-3193/PIPE-3175: Refactor `select_tsys_field` identifier handling -
Rui Xue 6e0dbf6d7de09c39ce9ba1db0cf9010fb1001dd0 m
PIPE-3193: Add test case for numeric field names with CASA-convention auto-quoting
-
Remy Indebetouw 85a9aced79d576783977921649dedd274bbfd206 m
PIPE-3193/PIPE-3175: Refactor `select_tsys_field` identifier handling
- handle case of `tsys_fields`` specified by index instead of name
- align `src_by_name` keys with Field.name auto-quoted form
- split numeric/name logic branches explicitly
- deterministic tie-breaking in the fallback nearest field selection -
Rui Xue 53c2cad82ca288412bc15ba9c206cf4c35694acc m
Pull request #1918: PIPE-3195: Remove '-dirty' suffix from build version for cleaner documentation output
Merge in PIPE/pipeline from docs/PIPE-3195-rtd-remove-dirty-suffix-to-main to main
* commit '00589186c3f594268f4f8018ec35a6e7270db40e':
PIPE-3195: Remove '-dirty' suffix from build version for cleaner documentation output -
Rui Xue 00589186c3f594268f4f8018ec35a6e7270db40e m
PIPE-3195: Remove '-dirty' suffix from build version for cleaner documentation output
-
Patrick Bos 9d92660b6352ae18ac6af81eabaabfe51aad8484 m
Pull request #1876: PIPE-3088 speedup ms zenith compute
Merge in PIPE/pipeline from PIPE-3088-speedup-ms-zenith-compute to main
* commit 'e65f1dbba5eea0d2a8b5f6c20a45e12d046cb186':
PIPE-3088: relax test tolerance for zenith distance regression test
PIPE-3088: remove redundant me.doframe(obs_pos) from inner loop
PIPE-3088: add approx regression test for compute_zd_telmjd_for_ms
PIPE-3088: speed up compute_zd_telmjd_for_ms by 1.8x
PIPE-3088: speed up compute_zd_telmjd_for_ms while preserving exact output
PIPE-3088: add regression test for compute_zd_telmjd_for_ms -
Rui Xue e65f1dbba5eea0d2a8b5f6c20a45e12d046cb186 m
PIPE-3088: relax test tolerance for zenith distance regression test
-
Rui Xue 1faa264dbe6c17cf5b19886866107fe6d5b8cda6 m
Pull request #1895: PIPE-3172: switch off outframe and regridms in default from hifv_mstransform
Merge in PIPE/pipeline from PIPE-3172-hifv_mstransform-should-not-have-frame-transform-enabled-by-default to main
* commit '3029256b3fa22f804d98024d1d868781789a0bf8':
PIPE-3172: Expose outframe and regridms parameters in hifv_mstransform -
Rui Xue 7b2f7e410e5a6e3398c92f57cd55dced97e0709d m
Merge tag '2026.1.1.102' into PIPE-3127-add-spw-filitering-to-max-cube-size-and-max-product-size-image-mitigation-steps
-
Rui Xue 204d4b1283b1fc602b74245588b34b21123a76d8 m
PIPE-3127: style cleanup — lazy logging, PEP 8
-
Patrick Bos 08e7d109b5bad02ab7bb72f834c18cd17ae8fae7 m
Pull request #1878: PIPE-3088: remove unused zd and telmjd from Field
Merge in PIPE/pipeline from PIPE-3088-remove-field-zd-telmjd to main
* commit '2604c000b4fb90773edb5aeba90b78ff5828989c':
remove unused imports from Field (datetime, QuantityDict)
remove unused zd and telmjd from Field -
Rui Xue ea7fcbc9473f25ebb0dffbe179037c40a3b75e6b m
Pull request #1906: PIPE-2738 to MAIN
Merge in PIPE/pipeline from docs/PIPE-2738-migrate-cli-documentation to main
* commit 'fedbef94ab69cccfedde2c7137a718b6d38cc612': (114 commits)
PIPE-2738: fix two docstring gaps found during CLI doc fact-check
PIPE-2738: improve parameter_linking extension logging and typing
PIPE-2738: remove unused `mod_name` parameter from `_is_class_based_task`
PIPE-2738: Remove the wrong statement related to `hsd_flagdata` `autocorr` parameter.
PIPE-2738: remove incorrect "Low transmission" agent from hsd_flagdata docstring
PIPE-2738: Refine Furo wide-screen layout symmetry and TOC collapse behavior
PIPE-2738: add a pipeline Q&A documentation
PIPE-2997: Explicitly disable the `--locked` flag in pixi setup
PIPE-2738: Add RL to the "Contributors and Affiliations" section
PIPE-2890: Improve the clarity of default `flagtargetstemplate.txt` names
PIPE-2738: Update Pixi version to 0.70.2 in workflow and documentation setup
PIPE-2738: Update release and timeline documentation for `release/2026.2.0`
PIPE-2738: Add unified styling for docstring section headings
PIPE-2890: Remove redundant Returns sections from 67 CLI docstrings
PIPE-2738: Add parameter linking in Sphinx documentation
PIPE-2738: Add parameter documentation note to class-based CLI tasks
PIPE-2738: Add type hints for `h_init`
PIPE-2890: Update diagnostic plot description for missed line channels in `hsd_imaging`
PIPE-2738: Convert task references to Sphinx cross-references
PIPE-2738: Add code review and merge guidelines to "Git development workflow"
... -
Rui Xue fedbef94ab69cccfedde2c7137a718b6d38cc612 m
PIPE-2738: fix two docstring gaps found during CLI doc fact-check
- `hifa_tsysflag`: add missing `parallel` parameter description to
TsysflagInputs.__init__; wording borrowed from hifa_bandpass
- `hif_makeimlist`: replace inline "(not implemented)" note for `outframe`
with a proper Note block; parameter is kept for future development -
Rui Xue 13b84f8c355d17808abd2d1fb895c58560d0075a m
PIPE-2738: improve parameter_linking extension logging and typing
- Replace bare `except Exception` with narrow `except (OSError, AttributeError, ValueError)`
- Switch `print()` calls to `logger.warning/info()` for proper Sphinx log integration
- Replace `typing.Dict` with built-in `dict` -
Rui Xue 02c247069b20c4fba25458177d727cdb37315529 m
PIPE-2738: remove unused `mod_name` parameter from `_is_class_based_task`
-
Rui Xue 23d5fcc689fab98da4100fcb18c98ad76ad3909d m
PIPE-2738: Remove the wrong statement related to `hsd_flagdata` `autocorr` parameter.
-
Rui Xue 91cdc20542d0b54f0399656a19b1cf9d73d0321c m
PIPE-2738: remove incorrect "Low transmission" agent from hsd_flagdata docstring
The Low Transmission flagging agent is not active for SD tasks:
`FlagDeterALMASingleDishInputs` does not override the base-class default
(lowtrans=False), so the agent is never executed by `hsd_flagdata`. -
Rui Xue 3b18ae58db0f5e96341c112c45c2cc41d2a0181f m
Merge tag '2026.1.1.102' into docs/PIPE-2738-migrate-cli-documentation
Resolved conflicts:
- pipeline/hif/cli/hif_findcont.py
- pipeline/hif/cli/hif_mstransform.py -
Remy Indebetouw f0466d063aab7f58de89f520cce5a72265b0d816 m
cleaned message formatting slightly. moved the creation of overlimit_spws and oversize_spws out of the conditional blocks, so that they can always be printed to the log - I found this quite useful to debug and understand what was going on.
-
Ajay Vibhute 679995bafc1062f834ee8193f5f6c1e290895b03 m
Pull request #1900: PIPE-3165: bugfix in checking durations is not empty
Merge in PIPE/pipeline from PIPE-3165-pipeline-erroneously-thinks-standard-calibrator-is-fully-flagged-in-some-data to main
* commit 'bceb969cb92c19a064318de2bf91977100168963':
PIPE-3165: bugfix in checking durations is not empty -
E. G. Patrick Bos <e.g.p.bos@rug.nl> 2604c000b4fb90773edb5aeba90b78ff5828989c m
remove unused imports from Field (datetime, QuantityDict)
-
E. G. Patrick Bos <e.g.p.bos@rug.nl> b8dcffce28ca21b6d86efc2f77ea611604beb2a2 m
PIPE-3088: remove redundant me.doframe(obs_pos) from inner loop
The observatory position frame is already set once before all loops.
Calls to me.doframe() for the epoch type do not affect the
observatory frame, so re-doing doframe(obs_pos) on every timestamp
is unnecessary.
Timing (compute_zd_telmjd_for_ms, 50 runs, 74 timestamps):
before (d851488da): 12.629 ms per call
after (this commit): 9.204 ms per call
speedup: 1.37x (27% reduction)
Cumulative vs main (22.901 ms): 2.49x speedup
Exact output preserved (verified by test_telmjd_exact). -
Luke Maud a53b4762a6dfde8dfffda8d2fb75fadf0b87855e m
PIPE-3127 added spws reassign after field mitigation
-
Rui Xue e46fbf1ec96dc6ba821f283153c5793cc0efc07d m
Pull request #1902: PIPE-65: alma pipeline should add the values and a plot of the ph tgt ck separation angles to the
Merge in PIPE/pipeline from PIPE-65-alma-pipeline-should-add-the-values-and-a-plot-of-the-ph-tgt-ck-separation-angles-to-the to main
* commit '6486533206216dd5245b5d9f91375038d94d1a7b':
PIPE-65: Remove unused `mosaic_target` and `ephemeris_target` intermediate variables
PIPE-65: Fix spelling errors in comments and docstrings
PIPE-65: Fix a risk of `NameError` in `plot_separations`, "mosaic_target" scoping bug, and undefined Tuple/List annotations
changes suggested by Rui during code review.
Applied suggestion
Applied suggestion
Applied suggestion
Applied suggestion
Applied suggestion
PIPE-65 correct min and max field filter to use TARGET intent only
PIPE-65 added new weblog locator NOWEB as to exclude render but include score in AQUA report
After PR unrequired code removals
PIPE-65 fill aqua report dataselection edits to mako text
PIPE-65 adding separation angles to AQUA report via hidded QA score
PIPE-65 refactor where field filter occurs print to LOG
PIPE-65 update the plot label consolidation code
PIPE-65 new shape and early code for plot ID consolidation
PIPE-65 changed to plus patch sysmbol and move spwmapping code to separation_angles
PIPE-65 refactored code to separate functions for plotting
PIPE-65 make table and plots for target to phase and check seperation angles -
Rui Xue 6486533206216dd5245b5d9f91375038d94d1a7b m
PIPE-65: Remove unused `mosaic_target` and `ephemeris_target` intermediate variables
-
Rui Xue d09115b9e2288e7c954053379cfac4acb624fc1b m
PIPE-65: Fix spelling errors in comments and docstrings
- pipeline/infrastructure/displays/plotseparation.py (version d09115b9e2288e7c954053379cfac4acb624fc1b) (diffs)
- pipeline/infrastructure/renderer/rendererutils.py (version d09115b9e2288e7c954053379cfac4acb624fc1b) (diffs)
- pipeline/infrastructure/utils/separation_angles.py (version d09115b9e2288e7c954053379cfac4acb624fc1b) (diffs)
- pipeline/qa/scorecalculator.py (version d09115b9e2288e7c954053379cfac4acb624fc1b) (diffs)
-
Rui Xue 1b4df0230720e756cc73a5b5608b591df5589e5e m
PIPE-65: Fix a risk of `NameError` in `plot_separations`, "mosaic_target" scoping bug, and undefined Tuple/List annotations
-
Remy Indebetouw 3dd2dbdadc6deee2b97f34951d888bd4d45158ad m
Pull request #1898: PIPE-3163: reinstate a fallback for when tsys is not taken on every target to plot the closest target-mapped tsys field.
Merge in PIPE/pipeline from PIPE-3163-source-pointings-plots-missing-for-multi-target-datasets to main
* commit '63d27a50e125fb013f04590846b0ecb57b31339d':
PIPE-3163: Fix field-level deduplication in tsysfieldmap
PIPE-3163: Refactor `select_tsys_fields` to return single best-matching field
I don't know how the pytest is set up, just trying to get this done since the dev. is not available.
added debugging log messages about multiple tsys fields fixed function name that broke the test
typo
reinstate a fallback, for when tsys is not taken on every target, to plot all the other target mapped tsys fields. -
Rui Xue 63d27a50e125fb013f04590846b0ecb57b31339d m
PIPE-3163: Fix field-level deduplication in tsysfieldmap
- `get_tsys_fields_for_intent` now returns an insertion-ordered list[str]
instead of a set, ensuring reproducible output
- Fix f() to deduplicate at the field ID level, not the whole
comma-separated string level -
Rui Xue 27753479c2122ad6297b0c79919ef3d603d442f1 m
PIPE-3163: Refactor `select_tsys_fields` to return single best-matching field
- Rename `select_tsys_fields` back to `select_tsys_field`; return Field | None
instead of list[Field] / raising LookupError
- Implement nearest-field fallback (angular separation) replacing the
previous "return all fields" approach
- Update `plot_tsys_scans` to handle `None` return gracefully
- Fix tests: add per-case gainfield mock, add nearest-fallback test case
Casa6
-
Hendrik Muller b1364209b14c59988f2bbeb0a20cdaca9d7f26a7
Pull request #1071: CAS-14778
Merge in CASA/casa6 from CAS-14778 to master
* commit '0d731f5701553c3bcd07344a0be600f6ec4afee4':
CAS-14778 : Fix rectangular image case
rename to cameltype and assert that dimensions are either both even or both odd
Add test
Copy the solution for odd pixels that was found for Matrix Cleaner over to also apply to MultiTermMatrixCleaner.cc Validated on Cygnus A, scales=[0,1], nterms=1, cellsize = 1.6 arcsec (such that the bright termination lobes correspond to just a few pixels transversely, in this way we can test the effect of the code change without simply looking at the effects of extended emission)
Solved the problem for an odd number of pixels for Asp-CLEAN and MS-CLEAN. That is simply done by moving the slice for the beam subtraction up by one pixel. The problem does not exist for Hogbom. TBD: Verify that these fixes also fix the spectral versions and multiterm versions of the deconvolvers. -
Hendrik Muller 0d731f5701553c3bcd07344a0be600f6ec4afee4
Merge master into CAS-14778 and solve conflicts
-
Srikrishna Sekhar 168f78ecd03c70929274c48e48547a24bd3f6c0f
Pull request #1069: CAS-14825
Merge in CASA/casa6 from CAS-14825 to master
* commit 'ab5779d7deaa35eb006c36f649795df34e1e2806':
CAS-14825 : Remove traps for nterms < 2 and MT-MFS -
Kumar Golap 1f467a3655aafa75c3a19e3324e0abdef1049b4a
Pull request #1067: CAS-14454
Merge in CASA/casa6 from CAS-14454 to master
* commit '21c177edd7dc97ff82dd395da776255d46cd9553':
Fixed: trying to just fill model column was not copying over the tt images to the cube model for prediction
As per reviewer comment added a squint correction test to the mvc test.
Added unit tests and fixed a per pol normalization
Fix an oversight ...when having pol images the full pol pb was being used rather that each stokes. -
Akeem Wells d5640ce284463154184c5da9c621cd28d3ef14a6
Pull request #1070: Remove redundant module cleanup calls
Merge in CASA/casa6 from CAS-14846 to master
* commit '2b25ebdd0b7c6b816a08a6ddea03ecd4c792427f':
Remove redundant module cleanup calls -
Srikrishna Sekhar d03371710fc33be7f53d288c28b57661ecab1afd
CAS-14778 : Fix rectangular image case
Specifically, allow one axis to be odd and the other even. Previously
this was trapped as an exception, but this is explicitly a use-case that
tclean supports.- casatools/src/code/synthesis/MeasurementEquations/AspMatrixCleaner.cc (version d03371710fc33be7f53d288c28b57661ecab1afd) (diffs)
- casatools/src/code/synthesis/MeasurementEquations/AspMatrixCleaner.h (version d03371710fc33be7f53d288c28b57661ecab1afd) (diffs)
- casatools/src/code/synthesis/MeasurementEquations/MatrixCleaner.cc (version d03371710fc33be7f53d288c28b57661ecab1afd) (diffs)
- casatools/src/code/synthesis/MeasurementEquations/MatrixCleaner.h (version d03371710fc33be7f53d288c28b57661ecab1afd) (diffs)
- casatools/src/code/synthesis/MeasurementEquations/MultiTermMatrixCleaner.cc (version d03371710fc33be7f53d288c28b57661ecab1afd) (diffs)
- casatools/src/code/synthesis/MeasurementEquations/MultiTermMatrixCleaner.h (version d03371710fc33be7f53d288c28b57661ecab1afd) (diffs)
-
Akeem Wells 2b25ebdd0b7c6b816a08a6ddea03ecd4c792427f
Remove redundant module cleanup calls
-
Srikrishna Sekhar ab5779d7deaa35eb006c36f649795df34e1e2806
Merge remote-tracking branch 'origin/master' into CAS-14825
-
George Moellenbrock a8b6cc9b6ecadea9c95af1dc28341ed198a48da8
Pull request #1068: CAS-14763
Merge in CASA/casa6 from CAS-14763 to master
* commit 'f2e0db200c55d4b3c26e06bf80d6211944a47756': (74 commits)
Change type to G
Add standard errors for parameters
Update xml and tests
Change default clock order and update the test data origin
Remove debugging list type, return of task zenithdelaycal is dict
Updated test to use data with all VLBA antennas
Updated test header
Add test data procedence
Adds more tests
Add per polarization clock solution
Switch to CASA measures to compute antenna elevations
Updated tests for zenithdelaycal
Name based antenna selection from MS
Add implementation to ZenithDelayJones
Add tests
Add implementation to ZenithDelayJones
Add caltable output
For CAS-14763, added comments to aid development
For CAS-14763, in ZenithDelayJones::setApply(Record&), removed some unnecessary stuff.
For CAS-14763, added skeletal ZenithDelayJones class (ZenithDelayCal.{h,cc}) to eventually support application of zenith-angle dependent macroscopic delay calibration for VLBI, and make VisCalGlobals's SolvableVisCal factories aware of it. This requires further development for it to work.
... -
Hendrik Muller 48dba78833583f0737a0135c320a1b8bea09a03a
Pull request #1063: CAS-14797
Merge in CASA/casa6 from CAS-14797 to master
* commit 'd0332c4e3cda643f0a1b8a128c35f1a6ee2e973f':
Streamline the implementations of helper functions in just two helper functions now made available in MatrixCleaner.cc
Search only over inner square
Make MSMT-CLEAN compatible with previous runs again
repeat same accelerations for AspMatrixCleaner and for MultiTermMatrixCleaner
This code will increase the speed for MS-CLEAN. This is achieved by two main improvements: -> Subtract beam is faster than casacore functionality which creates temporary copies -> Run peak finding only over square determined by blcdirty and trcdirty rather than the full image -> again, the direct implementation is faster than casacore minMax functionality -
Hendrik Muller 7279dc159c47f7a3fc656e6e2c11d942cc0c383a
Pull request #1062: CAS-14814
Merge in CASA/casa6 from CAS-14814 to master
* commit 'cb65c9b710137b44a5624dadade29b814c6a2a3d':
Remove dead code
labeling, pruning and blob-size counting in memory, avoid temporary copies
Optimize Automasking region labelling and pruning
Main bottleneck is binaryDilation computation. This part of the code has been accelerated now, by: 1.) Remove IPosition constructions from inner loop 2.) Use direct storage pointers 3.) Precompute structure offsets 4.) Return changed from BinaryDilationCore 5.) Remove the full image check in BinaryDilation() 6.) Avoid extra full-plane scans -
Hendrik Muller b5ed254f61284e8d389fac82e4b21e8fe30e5194
Pull request #1061: CAS-14804
Merge in CASA/casa6 from CAS-14804 to master
* commit 'b21128a27d35f918b11d60dad2d1ff729e92d923':
Inflate epsilon for passing tests across platforms
Add tclean task for CAS-14804, depends on fasr dataset
Update comparison values in test_onefield_asp
Reverse to normalization with psf width again, this makes the unittest testonefieldasp performing superior to old version again
Solution by rescaling the objfunc, and amplitudes, for more details see description at Jira ticket -
Darrell Schiebel 7b1775c8b104e59a7050264a2b88acebdda5ca2c
Pull request #1066: CAS-14798
Merge in CASA/casa6 from CAS-14798 to master
* commit '8959b8b05b1f67087d8deb301e5ccd2c73ecfcfb':
[CAS-14798] update build.conf for master build of GUI wheels
[CAS-14798] increment version for bamboo build-based jar files
[CAS-14798] fix botched isolation of build from casa-source tree
[CAS-14798] fix typo in casalogger version number
[CAS-14798] trigger a clean rebuild
[CAS-14798] update build.conf dev wheel versions for each of the six GUI
[CAS-14798] add CASA_APPIMAGE_CACHE_DIR env variable detection for casaplotserver exec grpcFlagAgentDisplay.cc fetches the full path to the casaplotserver AppImage and execs it directly
[CAS-14798] update xml-casa version -
Takahiro Tsutsumi 7274e44a3e3f643fb5606f5dfd2c7fbc354653e8
Pull request #1064: CAS-14713
Merge in CASA/casa6 from CAS-14713 to master
* commit '85a64657cf577e2f2e27f15d9e8dc1843ce1efcc':
remove the duplicated funtionality that exist in almatestutils
remove print statements for debugging
Modify the code based on code review
Remove some lines previously commented out
Clean up debug messages
Add missing import for casalog
fix check_list_vals to return False if at least one of the list index match fail. Add proper handling of per-Stokes plane multiple peak locaitons.
Per pol plane peak positions
Add a function to get a list of peak positions when the peak pix value is not unique and a test function to check against a list of possible positions. -
Kumar Golap 58d771b2f9737fb95362cc67cd6b117386be399f
Pull request #1060: CAS-14342
Merge in CASA/casa6 from CAS-14342 to master
* commit 'da072f6cba0d386485b1188c73e598cd335fc673':
redo this...foiled by SIImageStore smartness
fixed a place whereI missed widefield
fixed typo
Added widefield as a gridder for single field that can ignore blanking when pblimit is less than 0
fixed a typo that got in
Fix reviewer suggestion + some doc change
when pblimit is -ve for non A-term gridders the beam is set to 1.0 to allow for deconvolution of pesky sources without bothering about correctness of these sources -
Kumar Golap 163f7bcfe37c6d7988c925040f62302b9743903a
Pull request #1059: CAS-14520
Merge in CASA/casa6 from CAS-14520 to master
* commit '6d1b664f4857b653720cb2e3a5ff36128272277e':
removed "user" from a log line
added empty space between bracket and value printed
added logger message about fracbw used by bwtaper
disabling bwtaper test in parallel to allow this feature in
Changes in doc according to reviewer
forgot to push this one in
brought fracbw up to tclean and enable test for briggsbwtaper -
Darrell Schiebel aa008dd2de4c07b22b70e776396e755f906db639
Pull request #1055: CAS-14430
Merge in CASA/casa6 from CAS-14430 to master
* commit '0c4da0be7d119cd0bc22330490f7acbe3227f017':
[CAS-14430] remove comment that is now misleading
[CAS-14430] fix problem generating plot file WITHOUT showing the plot
remove line duplication (found in code review) [CAS-14430]
plotcomp: resurrect, update simulator use, clean up plot, patch back into predictcomp [CAS-14430]
fix errors signaled by the python interpreter [CAS-14430] like: ---------------------------------------------------------------------- casatasks/private/task_gencal.py:99: SyntaxWarning: "is not" with 'str' literal. Did you mean "!="? if infile is not 'None' and infile is not '': casatasks/private/task_gencal.py:99: SyntaxWarning: "is not" with 'str' literal. Did you mean "!="? if infile is not 'None' and infile is not '': casatasks/private/task_gencal.py:100: SyntaxWarning: "is not" with 'str' literal. Did you mean "!="? if antenna is not '' or pol is not '' or len(parameter) != 0: casatasks/private/task_gencal.py:100: SyntaxWarning: "is not" with 'str' literal. Did you mean "!="? if antenna is not '' or pol is not '' or len(parameter) != 0:
changes to resolve warnings about invalid escape sequences in strings [CAS-14430] like: ----------------------------------------------------------------------------------- casatasks/private/task_simalma.py:385: SyntaxWarning: invalid escape sequence '\d' q = re.compile('CYCLE\d?\d') -
Darrell Schiebel <darrell@schiebel.us> 8959b8b05b1f67087d8deb301e5ccd2c73ecfcfb m
[CAS-14798] update build.conf for master build of GUI wheels
-
Pedro Salas <salas.mz@gmail.com> f2e0db200c55d4b3c26e06bf80d6211944a47756
Change type to G
Polarization dependent clock corrections have
to be at the G position in the measurement equation. -
Pedro Salas <salas.mz@gmail.com> fb24dd1237d7fd51d73332ff3e909e5241ff7c68
Add standard errors for parameters
-
Srikrishna Sekhar a3ce0a540b31cc1cedbc5420f3f2dc9c7f3df0fb
CAS-14825 : Remove traps for nterms < 2 and MT-MFS
This allows nterms=1 to run, which is mathematically consistent with
using hogbom clean via different internal machinery.
We will deprecate this usage mode at a future date, but this resolves
issues with running the pipeline in this mode. -
Pedro Salas <salas.mz@gmail.com> a9f69cae62f58a3db507572250368d3f622d20f4
Update xml and tests
- casatasks/src/private/task_zenithdelaycal.py (version a9f69cae62f58a3db507572250368d3f622d20f4) (diffs)
- casatasks/tests/tasks/test_task_zenithdelaycal.py (version a9f69cae62f58a3db507572250368d3f622d20f4) (diffs)
- casatasks/xml/zenithdelaycal.xml (version a9f69cae62f58a3db507572250368d3f622d20f4) (diffs)
-
Takahiro Tsutsumi 85a64657cf577e2f2e27f15d9e8dc1843ce1efcc
remove the duplicated funtionality that exist in almatestutils
-
Takahiro Tsutsumi 1faca51ce1cbd22673e671bfd11a25a9ca52536a
remove print statements for debugging
-
Takahiro Tsutsumi b8d02b8d7a23c3e0b5a3449f16dbf2763c52af71
Modify the code based on code review
-
Pedro Salas <salas.mz@gmail.com> 9e08fac4b625a44b976942466897d5d0118b68e9
Change default clock order and update the test data origin
-
Kumar Golap da072f6cba0d386485b1188c73e598cd335fc673
redo this...foiled by SIImageStore smartness
-
Kumar Golap 5e1e42dcc1efddf06c41b25c29161a05fec56919
fixed a place whereI missed widefield
-
Takahiro Tsutsumi 08de68578f0bb647373db2b80a93df655852dbc7
Remove some lines previously commented out
-
Kumar Golap e311eb30d529e17565f7fae5cedd9223b71fcb73
fixed typo
-
Kumar Golap 3bffb5213a5314f8fd87469b148fcce8ab33c3e5
Added widefield as a gridder for single field that can ignore blanking when pblimit is less than 0
-
Kumar Golap a6496101b8b5d0ef508d78894b50f5adfd1764c4
Merge branch 'master' into CAS-14342
-
Takahiro Tsutsumi 94c2a6878f41bba17876d22b3c12c5672d5d8565
Merge remote-tracking branch 'refs/remotes/origin/CAS-14713' into CAS-14713 merge to reconcile divergent local branch
-
Takahiro Tsutsumi 28e830b9ee75ef5b37a65568faea749297b33c63
Clean up debug messages
-
Akeem Wells 0cd5ebaa0b28539a3611a43ec2c1aa497bdce994
Remove debugging list type, return of task zenithdelaycal is dict
-
Akeem Wells 2f1ac5746f702155a0f5518b75ac7c8c77494542
Add missing import for casalog
-
Pedro Salas <salas.mz@gmail.com> c29bc1a95bacecfd32e7f2ba8bf59a003f4fad7c
Updated test to use data with all VLBA antennas
-
Hendrik Muller <hmuller@smurf.aoc.nrao.edu> a23393d10e4d61b542ce4f503b84139fcf2b79c1
rename to cameltype and assert that dimensions are either both even or both odd
- casatools/src/code/synthesis/MeasurementEquations/AspMatrixCleaner.cc (version a23393d10e4d61b542ce4f503b84139fcf2b79c1) (diffs)
- casatools/src/code/synthesis/MeasurementEquations/AspMatrixCleaner.h (version a23393d10e4d61b542ce4f503b84139fcf2b79c1) (diffs)
- casatools/src/code/synthesis/MeasurementEquations/MatrixCleaner.cc (version a23393d10e4d61b542ce4f503b84139fcf2b79c1) (diffs)
- casatools/src/code/synthesis/MeasurementEquations/MatrixCleaner.h (version a23393d10e4d61b542ce4f503b84139fcf2b79c1) (diffs)
- casatools/src/code/synthesis/MeasurementEquations/MultiTermMatrixCleaner.cc (version a23393d10e4d61b542ce4f503b84139fcf2b79c1) (diffs)
- casatools/src/code/synthesis/MeasurementEquations/MultiTermMatrixCleaner.h (version a23393d10e4d61b542ce4f503b84139fcf2b79c1) (diffs)
-
Hendrik Muller <hmuller@smurf.aoc.nrao.edu> 1e86847f0d14c829305b9799311670e7888e2d85
Merge branch 'master' into CAS-14778
-
Pedro Salas <salas.mz@gmail.com> 8efc298b1ee618a06ba5d6b24c4877a4812e2844
Updated test header
-
Pedro Salas <salas.mz@gmail.com> 6d0c27d99a4a0c6cc045e135f98b0bb32ad110c8
Add test data procedence
-
Pedro Salas <salas.mz@gmail.com> 461c72a18dde7781909a07f2e5f7632ac6382b31
Adds more tests
-
Pedro Salas <salas.mz@gmail.com> f02390b447f0071a83c0e76d32981ff9b14ecf13
Add per polarization clock solution
-
Hendrik Muller <hmuller@smurf.aoc.nrao.edu> b21128a27d35f918b11d60dad2d1ff729e92d923
Merge branch 'master' into CAS-14804
-
Kumar Golap 6d1b664f4857b653720cb2e3a5ff36128272277e
removed "user" from a log line
-
Kumar Golap 73a000976d21b66e59fd1d46dc2c1855982f8656
Merge branch 'master' into CAS-14520
-
Hendrik Muller <hmuller@smurf.aoc.nrao.edu> bfb544eb61bfcb9abf7285412bb4235703c92594 m
Inflate epsilon for passing tests across platforms
-
Srikrishna Sekhar 9eede3a21f1d4e6e61185ac7568ebc0a3563656f
Pull request #1056: CAS-13898
Merge in CASA/casa6 from CAS-13898 to master
* commit '81f8d50803a4f8d4ceb2d5dfecd8e67f25d11658':
CAS-13898 : Fix memory allocation per-plane
CAS-13898 : Re-use getMemoryAvailable from appRC
CAS-13898 : remove unnecessary temp image allocs -
Dirk Petry <dpetry@eso.org> 7942d3c489c3dd85ce20bcfce026db5ee274f373
Pull request #1057: CAS-14808: improved task messaging, added unit test case testSky_sdObs_noise, updated stakeholder tests
Merge in CASA/casa6 from CAS-14808 to master
* commit 'fd028a1e11a9a712747c80c3508fd96597a93a87':
CAS-14808: improved task messaging, added unit test case testSky_sdObs_noise, updated stakeholder tests -
Hendrik Muller <hmuller@smurf.aoc.nrao.edu> cb65c9b710137b44a5624dadade29b814c6a2a3d
Merge remote-tracking branch 'origin/CAS-13898' into CAS-14814
-
Takahiro Tsutsumi c97980db1775b1d458742f818699548872b9568f
fix check_list_vals to return False if at least one of the list index match fail. Add proper handling of per-Stokes plane multiple peak locaitons.
-
Bob Garwood 350d94ec32491983c2ac6a838a3d80a0a5c85748
Pull request #1058: CAS-14743
Merge in CASA/casa6 from CAS-14743 to master
* commit 'cf36a43bb30fdb33b15f44d8c7f1102b036e1475':
remove hosts example
fixed two typos
updated getandposalma.xml
additional edits of getantposalma.xml descriptions
edited getantposalma.xml short and long parameter descriptions -
Pedro Salas <salas.mz@gmail.com> 02f46298c6e745fbd8b3e67318c60d6686bcc232
Switch to CASA measures to compute antenna elevations
-
Takahiro Tsutsumi fe6abb1993ecdcb395f7f632dd7360074c88e05d
Per pol plane peak positions
-
Pedro Salas <salas.mz@gmail.com> 65b6f51bc9fa28f7c9e6ca65e182a60a0727b504
Updated tests for zenithdelaycal
Numerical comparisons of delays are now in ns.
Checks that after correction the delay is lower than the input. -
Darrell Schiebel <darrell@schiebel.us> 92f93660848834af9036186d10ec247fbe8c991e m
[CAS-14798] increment version for bamboo build-based jar files
-
Dirk Petry <dpetry@eso.org> fd028a1e11a9a712747c80c3508fd96597a93a87
CAS-14808: improved task messaging, added unit test case testSky_sdObs_noise, updated stakeholder tests
- casatasks/src/private/task_simobserve.py (version fd028a1e11a9a712747c80c3508fd96597a93a87) (diffs)
- casatasks/tests/tasks/test_task_simobserve.py (version fd028a1e11a9a712747c80c3508fd96597a93a87) (diffs)
- casatests/regression/test_regression_sim_TP.py (version fd028a1e11a9a712747c80c3508fd96597a93a87) (diffs)
- casatests/regression/test_regression_sim_components_and_skymodel.py (version fd028a1e11a9a712747c80c3508fd96597a93a87) (diffs)
-
Pedro Salas <salas.mz@gmail.com> 2dcc51bf29adbbdded08744a793cfca5cd457f34
Name based antenna selection from MS
-
Pedro Salas <salas.mz@gmail.com> 6b625b706889644766dbb689f4c85a5b374fe3ae
Add implementation to ZenithDelayJones
-
Bob Garwood cf36a43bb30fdb33b15f44d8c7f1102b036e1475 m
remove hosts example
-
Takahiro Tsutsumi 4c5db684e3d470760dcccd79f6f1bb9a93fc37cc
Add a function to get a list of peak positions when the peak pix value is not unique and a test function to check against a list of possible positions.
-
Srikrishna Sekhar 81f8d50803a4f8d4ceb2d5dfecd8e67f25d11658
Merge remote-tracking branch 'origin/master' into CAS-13898
-
George Moellenbrock 29b9e60ff5efac7662bc3995bc056d79878deb05
Pull request #1054: CAS-14760
Merge in CASA/casa6 from CAS-14760 to master
* commit 'f6c71604a20604d7cdcacee8328f8a19cef05238':
For CAS-14760, for cross-hand delay solutions, ensure that FFT padding calculations yield positive channel axis length for LSB spws. -
Pedro Salas <salas.mz@gmail.com> 33b2fbc415de56930be30570f5fa84d745a20169
Add tests
-
Darrell Schiebel <darrell@schiebel.us> 580f7ba8bc6f2c526b3214f418d8dc965f8e8a33 m
[CAS-14798] fix botched isolation of build from casa-source tree
-
Darrell Schiebel <darrell@schiebel.us> 0ceb994ab76eaf6655d45035195e4b4520e312a6 m
[CAS-14798] fix typo in casalogger version number
-
Darrell Schiebel <darrell@schiebel.us> 87a4e40856d9cf9e88643382e7587aa5e72cb663 m
[CAS-14798] trigger a clean rebuild
-
Darrell Schiebel <darrell@schiebel.us> 927591af78dabcf42bdf37197cbfca007503fce7 m
[CAS-14798] update build.conf dev wheel versions for each of the six GUI
-
Pedro Salas <salas.mz@gmail.com> c3267a755113398c253955e4b5a35188798e4821
Add implementation to ZenithDelayJones
-
Pedro Salas <salas.mz@gmail.com> e6a6992396a62e7728b0d3857cf445a7eb3b21ba
Add caltable output
-
Hendrik Muller <hmuller@smurf.aoc.nrao.edu> cf29384c41f2f9a68d7cdb0dac981ca13e0ea475 m
Add tclean task for CAS-14804, depends on fasr dataset
-
Kumar Golap 21c177edd7dc97ff82dd395da776255d46cd9553
Fixed: trying to just fill model column was not copying over the tt images to the cube model for prediction
-
Kumar Golap 52e0d16a0c2818e302429c737793231a8e82a9c1
Merge branch 'master' into CAS-14454
-
Hendrik Muller <hmuller@smurf.aoc.nrao.edu> e33d119e94c5dd69e1f570bf5fe8348c6bcc2383 m
Update comparison values in test_onefield_asp
-
Hendrik Muller <hmuller@smurf.aoc.nrao.edu> 5bf775ed1b2dbd34144612bdef51ffb0a450e3fa m
Add test
-
Hendrik Muller <hmuller@smurf.aoc.nrao.edu> 67ae240e9506db41372a659be98b4941a0653cab
Remove dead code
-
Hendrik Muller <hmuller@smurf.aoc.nrao.edu> 57dca645ed29516158c4292ea6b178920a2f6dd1
labeling, pruning and blob-size counting in memory, avoid temporary copies
-
Hendrik Muller <hmuller@smurf.aoc.nrao.edu> 23f3834a2626e7f24feaa28f1caf8ac072cb53db
Optimize Automasking region labelling and pruning
Replace IPosition based region traversal with flat-index DFS
rewrite blob-wise counting using direct image access
prune small regions in a single image pass -
Hendrik Muller <hmuller@smurf.aoc.nrao.edu> fa59cb340f36c1709342a20a58e3790b4374cb78
Main bottleneck is binaryDilation computation. This part of the code has been accelerated now, by: 1.) Remove IPosition constructions from inner loop 2.) Use direct storage pointers 3.) Precompute structure offsets 4.) Return changed from BinaryDilationCore 5.) Remove the full image check in BinaryDilation() 6.) Avoid extra full-plane scans
This new version still needs to get validied solidly. -
Darrell Schiebel <darrell@schiebel.us> a96ca19d7cc456a0ba72b1fa78216eddedbb34fa m
[CAS-14798] add CASA_APPIMAGE_CACHE_DIR env variable detection for casaplotserver exec grpcFlagAgentDisplay.cc fetches the full path to the casaplotserver AppImage and execs it directly
-
Darrell Schiebel <darrell@schiebel.us> 0c4da0be7d119cd0bc22330490f7acbe3227f017 m
[CAS-14430] remove comment that is now misleading
-
George Moellenbrock 8e37292da807f31f380667d723ae1fec237c86da
For CAS-14763, added comments to aid development
-
George Moellenbrock f6c71604a20604d7cdcacee8328f8a19cef05238
Merge branch 'master' into CAS-14760
-
George Moellenbrock 86e433f3b0eafb5fa251d98ad45c15694eae424f
For CAS-14763, in ZenithDelayJones::setApply(Record&), removed some unnecessary stuff.
-
Darrell Schiebel <darrell@schiebel.us> f69c945ac0e98de109e70e7f80c3796695ac0ddb m
[CAS-14430] fix problem generating plot file WITHOUT showing the plot
-
George Moellenbrock 2326a6ec0adcef7d97c752e788ea1faf5e844343
Merge branch 'master' into CAS-14763
-
George Moellenbrock 12fa37f46cbda88ba49928e092c276ecfbea4c76 m
For CAS-14763, added skeletal ZenithDelayJones class (ZenithDelayCal.{h,cc}) to eventually support application of zenith-angle dependent macroscopic delay calibration for VLBI, and make VisCalGlobals's SolvableVisCal factories aware of it. This requires further development for it to work.
- casatools/src/code/synthesis/MeasurementComponents/VisCalGlobals.cc (version 12fa37f46cbda88ba49928e092c276ecfbea4c76) (diffs)
- casatools/src/code/synthesis/MeasurementComponents/ZenithDelayCal.cc (version 12fa37f46cbda88ba49928e092c276ecfbea4c76) (diffs)
- casatools/src/code/synthesis/MeasurementComponents/ZenithDelayCal.h (version 12fa37f46cbda88ba49928e092c276ecfbea4c76) (diffs)
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Hendrik Muller <hmuller@smurf.aoc.nrao.edu> 4cdb95ad5fe5d8cd4f3bfb41c27ffd0e1f78f5fe m
Reverse to normalization with psf width again, this makes the unittest testonefieldasp performing superior to old version again
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Pedro Salas <salas.mz@gmail.com> 3ffc4428ba984d05ace5aae7b1f5145b7cad6e91 m
Updated zenithdelaycal.xml
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Hendrik Muller <hmuller@smurf.aoc.nrao.edu> 70e53e2ea400c1595e0086e5677cbc1ea9c2b8d6 m
Copy the solution for odd pixels that was found for Matrix Cleaner over to also apply to MultiTermMatrixCleaner.cc Validated on Cygnus A, scales=[0,1], nterms=1, cellsize = 1.6 arcsec (such that the bright termination lobes correspond to just a few pixels transversely, in this way we can test the effect of the code change without simply looking at the effects of extended emission)
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Hendrik Muller <hmuller@smurf.aoc.nrao.edu> 73c9e410f8f52d13449f3c3a3be79a8cd90ca12b m
Solution by rescaling the objfunc, and amplitudes, for more details see description at Jira ticket
- casatools/src/code/synthesis/MeasurementEquations/AspMatrixCleaner.cc (version 73c9e410f8f52d13449f3c3a3be79a8cd90ca12b) (diffs)
- casatools/src/code/synthesis/MeasurementEquations/AspMatrixCleaner.h (version 73c9e410f8f52d13449f3c3a3be79a8cd90ca12b) (diffs)
- casatools/src/code/synthesis/MeasurementEquations/objfunc_alglib.h (version 73c9e410f8f52d13449f3c3a3be79a8cd90ca12b) (diffs)
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Pedro Salas <salas.mz@gmail.com> 090b5f82c32535a1d8a64498bbb6dca5ea101bfe m
Updated zenithdelaycal.xml
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Victor de Souza Magalhaes 182e6340b4a6f93b3c4ff855af23e1499361bd2b m
Fixed a few typos
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Pedro Salas <salas.mz@gmail.com> 04c70f9447a89f4edafe94c88005cc768247d3cc m
Adds docstrings, cleans up unused arguments and avoids computing axis limits for empty data in the visualization function
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Bob Garwood 59a02e6c0dc2c222d2ca62c27a3a742928726b2a m
fixed two typos
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Victor de Souza Magalhaes e00682e32d2302adb3cd69c0d37d81a06148da2c m
Removed an unused import to pandas.
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Darrell Schiebel <darrell@schiebel.us> e028441c3cb49ebeafa737de83d9f8fc7fd4cc1e m
[CAS-14798] update xml-casa version
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Hendrik Muller <hmuller@smurf.aoc.nrao.edu> d0332c4e3cda643f0a1b8a128c35f1a6ee2e973f m
Streamline the implementations of helper functions in just two helper functions now made available in MatrixCleaner.cc
- casatools/src/code/synthesis/MeasurementEquations/AspMatrixCleaner.cc (version d0332c4e3cda643f0a1b8a128c35f1a6ee2e973f) (diffs)
- casatools/src/code/synthesis/MeasurementEquations/AspMatrixCleaner.h (version d0332c4e3cda643f0a1b8a128c35f1a6ee2e973f) (diffs)
- casatools/src/code/synthesis/MeasurementEquations/MatrixCleaner.cc (version d0332c4e3cda643f0a1b8a128c35f1a6ee2e973f) (diffs)
- casatools/src/code/synthesis/MeasurementEquations/MatrixCleaner.h (version d0332c4e3cda643f0a1b8a128c35f1a6ee2e973f) (diffs)
- casatools/src/code/synthesis/MeasurementEquations/MultiTermMatrixCleaner.cc (version d0332c4e3cda643f0a1b8a128c35f1a6ee2e973f) (diffs)
- casatools/src/code/synthesis/MeasurementEquations/MultiTermMatrixCleaner.h (version d0332c4e3cda643f0a1b8a128c35f1a6ee2e973f) (diffs)
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Bob Garwood 23e4ed702d08a630d8c9c6e2e871e04dd0ba284e m
updated getandposalma.xml
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Darrell Schiebel <darrell@schiebel.us> 2e246db348ee344541aabea9c6313ff1876545db m
remove line duplication (found in code review) [CAS-14430]