remove deprecated docs too; fix github coverage test

desihub · Dec 4, 2024 · 4eaa95f · 4eaa95f
1 parent 2f81a10
commit 4eaa95f
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Showing 8 changed files with 1 addition and 201 deletions.
diff --git a/.github/workflows/python-package.yml b/.github/workflows/python-package.yml
@@ -85,7 +85,7 @@ jobs:
                 python -m pip install --no-deps --force-reinstall --ignore-installed 'fitsio${{ matrix.fitsio-version }}'
                 svn export https://desi.lbl.gov/svn/code/desimodel/${DESIMODEL_DATA}/data
             - name: Run the test with coverage
-              run: DESIMODEL=$(pwd) pytest --cov
+              run: DESIMODEL=$(pwd) pytest --cov py/desispec/test
             - name: Coveralls
               env:
                 COVERALLS_REPO_TOKEN: ${{ secrets.COVERALLS_REPO_TOKEN }}

diff --git a/doc/pipeline.rst → deprecated/doc/pipeline.rst b/doc/pipeline.rst → deprecated/doc/pipeline.rst
diff --git a/doc/qa.rst → deprecated/doc/qa.rst b/doc/qa.rst → deprecated/doc/qa.rst
diff --git a/py/desispec/scripts/night.py → deprecated/py/desispec/scripts/night.py b/py/desispec/scripts/night.py → deprecated/py/desispec/scripts/night.py
diff --git a/py/desispec/scripts/pipe.py → deprecated/py/desispec/scripts/pipe.py b/py/desispec/scripts/pipe.py → deprecated/py/desispec/scripts/pipe.py
diff --git a/py/desispec/scripts/quicklook.py → deprecated/py/desispec/scripts/quicklook.py b/py/desispec/scripts/quicklook.py → deprecated/py/desispec/scripts/quicklook.py
diff --git a/doc/api.rst b/doc/api.rst
@@ -152,9 +152,6 @@ desispec API
 .. automodule:: desispec.io.photo
     :members:
 
-.. automodule:: desispec.io.qa
-    :members:
-
 .. automodule:: desispec.io.raw
     :members:
 
@@ -212,84 +209,6 @@ desispec API
 .. automodule:: desispec.parallel
     :members:
 
-.. automodule:: desispec.pipeline
-    :members:
-
-.. automodule:: desispec.pipeline.control
-    :members:
-
-.. automodule:: desispec.pipeline.db
-    :members:
-
-.. automodule:: desispec.pipeline.defs
-    :members:
-
-.. automodule:: desispec.pipeline.plan
-    :members:
-
-.. automodule:: desispec.pipeline.prod
-    :members:
-
-.. automodule:: desispec.pipeline.run
-    :members:
-
-.. automodule:: desispec.pipeline.scriptgen
-    :members:
-
-.. automodule:: desispec.pipeline.tasks
-    :members:
-
-.. automodule:: desispec.pipeline.tasks.base
-    :members:
-
-.. automodule:: desispec.pipeline.tasks.cframe
-    :members:
-
-.. automodule:: desispec.pipeline.tasks.extract
-    :members:
-
-.. automodule:: desispec.pipeline.tasks.fiberflat
-    :members:
-
-.. automodule:: desispec.pipeline.tasks.fiberflatnight
-    :members:
-
-.. automodule:: desispec.pipeline.tasks.fibermap
-    :members:
-
-.. automodule:: desispec.pipeline.tasks.fluxcalib
-    :members:
-
-.. automodule:: desispec.pipeline.tasks.preproc
-    :members:
-
-.. automodule:: desispec.pipeline.tasks.psf
-    :members:
-
-.. automodule:: desispec.pipeline.tasks.psfnight
-    :members:
-
-.. automodule:: desispec.pipeline.tasks.qadata
-    :members:
-
-.. automodule:: desispec.pipeline.tasks.rawdata
-    :members:
-
-.. automodule:: desispec.pipeline.tasks.redshift
-    :members:
-
-.. automodule:: desispec.pipeline.tasks.sky
-    :members:
-
-.. automodule:: desispec.pipeline.tasks.spectra
-    :members:
-
-.. automodule:: desispec.pipeline.tasks.starfit
-    :members:
-
-.. automodule:: desispec.pipeline.tasks.traceshift
-    :members:
-
 .. automodule:: desispec.pixflat
     :members:
 
@@ -299,45 +218,6 @@ desispec API
 .. automodule:: desispec.preproc
     :members:
 
-.. automodule:: desispec.qa
-    :members:
-
-.. automodule:: desispec.qa.html
-    :members:
-
-.. automodule:: desispec.qa.qa_brick
-    :members:
-
-.. automodule:: desispec.qa.qa_exposure
-    :members:
-
-.. automodule:: desispec.qa.qa_frame
-    :members:
-
-.. automodule:: desispec.qa.qa_multiexp
-    :members:
-
-.. automodule:: desispec.qa.qa_night
-    :members:
-
-.. automodule:: desispec.qa.qa_plots
-    :members:
-
-.. automodule:: desispec.qa.qa_plots_ql
-    :members:
-
-.. automodule:: desispec.qa.qa_prod
-    :members:
-
-.. automodule:: desispec.qa.qa_quicklook
-    :members:
-
-.. automodule:: desispec.qa.qalib
-    :members:
-
-.. automodule:: desispec.qa.utils
-    :members:
-
 .. automodule:: desispec.qproc
     :members:
 
@@ -365,60 +245,6 @@ desispec API
 .. automodule:: desispec.qproc.rowbyrowextract
     :members:
 
-.. automodule:: desispec.quicklook
-    :members:
-
-.. automodule:: desispec.quicklook.arcprocess
-    :members:
-
-.. automodule:: desispec.quicklook.merger
-    :members:
-
-.. automodule:: desispec.quicklook.palib
-    :members:
-
-.. automodule:: desispec.quicklook.pas
-    :members:
-
-.. automodule:: desispec.quicklook.procalgs
-    :members:
-
-.. automodule:: desispec.quicklook.qas
-    :members:
-
-.. automodule:: desispec.quicklook.ql_plotlib
-    :members:
-
-.. automodule:: desispec.quicklook.qlboxcar
-    :members:
-
-.. automodule:: desispec.quicklook.qlconfig
-    :members:
-
-.. automodule:: desispec.quicklook.qlexceptions
-    :members:
-
-.. automodule:: desispec.quicklook.qlheartbeat
-    :members:
-
-.. automodule:: desispec.quicklook.qllogger
-    :members:
-
-.. automodule:: desispec.quicklook.qlpsf
-    :members:
-
-.. automodule:: desispec.quicklook.qlresolution
-    :members:
-
-.. automodule:: desispec.quicklook.quickfiberflat
-    :members:
-
-.. automodule:: desispec.quicklook.quicklook
-    :members:
-
-.. automodule:: desispec.quicklook.quicksky
-    :members:
-
 .. automodule:: desispec.resolution
     :members:
 
@@ -524,15 +350,9 @@ desispec API
 .. automodule:: desispec.scripts.mergebundles
     :members:
 
-.. automodule:: desispec.scripts.night
-    :members:
-
 .. automodule:: desispec.scripts.nightly_bias
     :members:
 
-.. automodule:: desispec.scripts.pipe
-    :members:
-
 .. automodule:: desispec.scripts.pipe_exec
     :members:
 
@@ -560,18 +380,6 @@ desispec API
 .. automodule:: desispec.scripts.procexp
     :members:
 
-.. automodule:: desispec.scripts.qa_exposure
-    :members:
-
-.. automodule:: desispec.scripts.qa_frame
-    :members:
-
-.. automodule:: desispec.scripts.qa_night
-    :members:
-
-.. automodule:: desispec.scripts.qa_prod
-    :members:
-
 .. automodule:: desispec.scripts.qproc
     :members:
 
@@ -581,9 +389,6 @@ desispec API
 .. automodule:: desispec.scripts.qsoqn
     :members:
 
-.. automodule:: desispec.scripts.quicklook
-    :members:
-
 .. automodule:: desispec.scripts.reformat_exptables
     :members:
 
@@ -602,9 +407,6 @@ desispec API
 .. automodule:: desispec.scripts.sky
     :members:
 
-.. automodule:: desispec.scripts.skysubresid
-    :members:
-
 .. automodule:: desispec.scripts.specex
     :members:
 

diff --git a/doc/index.rst b/doc/index.rst
@@ -10,10 +10,8 @@ Contents
 
     overview.rst
     install.rst
-    pipeline.rst
     dev.rst
     coadd.rst
-    qa.rst
     cte-correction.rst
     changes.rst
     api.rst