From 2b16a53128fda5ce22c7295d3946fc4332252dc5 Mon Sep 17 00:00:00 2001 From: Helen Kirk Date: Tue, 25 Jun 2024 11:03:24 -0700 Subject: [PATCH 1/2] Adding a build of Ubuntu22.04 with libraries needed for CASA, to provide a more stable base for future CASA container rebuilds --- .../Dockerfiles/casa/ubuntu22.04/Dockerfile | 29 +++++++++ .../Dockerfiles/casa/ubuntu22.04/Makefile | 28 +++++++++ .../Dockerfiles/casa/ubuntu22.04/init.sh | 11 ++++ .../casa/ubuntu22.04/nsswitch.conf | 62 +++++++++++++++++++ .../casa/ubuntu22.04/update-data.patch | 27 ++++++++ 5 files changed, 157 insertions(+) create mode 100644 science-containers/Dockerfiles/casa/ubuntu22.04/Dockerfile create mode 100644 science-containers/Dockerfiles/casa/ubuntu22.04/Makefile create mode 100755 science-containers/Dockerfiles/casa/ubuntu22.04/init.sh create mode 100644 science-containers/Dockerfiles/casa/ubuntu22.04/nsswitch.conf create mode 100755 science-containers/Dockerfiles/casa/ubuntu22.04/update-data.patch diff --git a/science-containers/Dockerfiles/casa/ubuntu22.04/Dockerfile b/science-containers/Dockerfiles/casa/ubuntu22.04/Dockerfile new file mode 100644 index 0000000..48e1695 --- /dev/null +++ b/science-containers/Dockerfiles/casa/ubuntu22.04/Dockerfile @@ -0,0 +1,29 @@ +FROM ubuntu:22.04 + +#This Dockerfile creates a local version of the Ubuntu 22.04 OS, along with +# standard software/libraries that CASA versions need to run. This container +# is stored on harbor for to assist with long term stability + + +RUN apt update +RUN apt upgrade -y + +RUN apt install -y libsm6 libxi6 libxrender1 libxrandr2 \ + libxfixes3 libxcursor1 libxinerama1 fontconfig \ + imagemagick xterm +RUN apt install -y perl autoconf autoconf graphviz xz-utils \ + gfortran libcanberra-gtk-module libsnl-dev +RUN apt install -y libxslt1.1 xauth xorg xvfb dbus + +RUN apt install -y libfuse2 + +RUN apt install -y gcc libgsl-dev libfftw3-dev + +RUN apt install -y sssd acl + +RUN apt install -y tcsh + +RUN apt install -y wget + + + diff --git a/science-containers/Dockerfiles/casa/ubuntu22.04/Makefile b/science-containers/Dockerfiles/casa/ubuntu22.04/Makefile new file mode 100644 index 0000000..0b43a81 --- /dev/null +++ b/science-containers/Dockerfiles/casa/ubuntu22.04/Makefile @@ -0,0 +1,28 @@ + +VERSIONS = \ + 22.04 + + +DOCKER_REPO_BASE=images.canfar.net/skaha/ubuntu + +.PHONY: build clean run + +all: build + +build: + @- $(foreach V,$(VERSIONS), \ + docker build -t ${DOCKER_REPO_BASE}:$(V) .; \ + ) + +clean: + @- $(foreach V,$(VERSIONS), \ + docker rmi ${DOCKER_REPO_BASE}:$(V) ; \ + ) + + +upload: build + @- $(foreach V,$(VERSIONS), \ + docker push ${DOCKER_REPO_BASE}:$(V) ; \ + ) +clean_all: clean +upload_all: upload diff --git a/science-containers/Dockerfiles/casa/ubuntu22.04/init.sh b/science-containers/Dockerfiles/casa/ubuntu22.04/init.sh new file mode 100755 index 0000000..035e666 --- /dev/null +++ b/science-containers/Dockerfiles/casa/ubuntu22.04/init.sh @@ -0,0 +1,11 @@ +#!/bin/bash + +echo "INIT START" +echo "sourcing admit_start.sh" +source /opt/admit/admit_start.sh +echo "setting up analysisUtils path" +echo 'import sys' > $HOME/.casa/init.py +echo 'sys.path.append("/opt/casa/analysisUtils/analysis_scripts/")' >> $HOME/.casa/init.py +echo 'import analysisUtils as au' >> $HOME/.casa/init.py +echo 'import analysisUtils as AU' >> $HOME/.casa/init.py +echo "INIT DONE" diff --git a/science-containers/Dockerfiles/casa/ubuntu22.04/nsswitch.conf b/science-containers/Dockerfiles/casa/ubuntu22.04/nsswitch.conf new file mode 100644 index 0000000..22d8d99 --- /dev/null +++ b/science-containers/Dockerfiles/casa/ubuntu22.04/nsswitch.conf @@ -0,0 +1,62 @@ +# +# /etc/nsswitch.conf +# +# An example Name Service Switch config file. This file should be +# sorted with the most-used services at the beginning. +# +# The entry '[NOTFOUND=return]' means that the search for an +# entry should stop if the search in the previous entry turned +# up nothing. Note that if the search failed due to some other reason +# (like no NIS server responding) then the search continues with the +# next entry. +# +# Valid entries include: +# +# nisplus Use NIS+ (NIS version 3) +# nis Use NIS (NIS version 2), also called YP +# dns Use DNS (Domain Name Service) +# files Use the local files +# db Use the local database (.db) files +# compat Use NIS on compat mode +# hesiod Use Hesiod for user lookups +# [NOTFOUND=return] Stop searching if not found so far +# + +# To use db, put the "db" in front of "files" for entries you want to be +# looked up first in the databases +# +# Example: +#passwd: db files nisplus nis +#shadow: db files nisplus nis +#group: db files nisplus nis + +passwd: sss files +shadow: files sss +group: sss files + +#hosts: db files nisplus nis dns +hosts: files dns + +# Example - obey only what nisplus tells us... +#services: nisplus [NOTFOUND=return] files +#networks: nisplus [NOTFOUND=return] files +#protocols: nisplus [NOTFOUND=return] files +#rpc: nisplus [NOTFOUND=return] files +#ethers: nisplus [NOTFOUND=return] files +#netmasks: nisplus [NOTFOUND=return] files + +bootparams: nisplus [NOTFOUND=return] files + +ethers: files +netmasks: files +networks: files +protocols: files +rpc: files +services: files + +netgroup: nisplus + +publickey: nisplus + +automount: files nisplus +aliases: files nisplus diff --git a/science-containers/Dockerfiles/casa/ubuntu22.04/update-data.patch b/science-containers/Dockerfiles/casa/ubuntu22.04/update-data.patch new file mode 100755 index 0000000..3dc80c6 --- /dev/null +++ b/science-containers/Dockerfiles/casa/ubuntu22.04/update-data.patch @@ -0,0 +1,27 @@ +#!/usr/bin/perl +## +## move rsync point from svn.cv.nrao.edu to casa.nrao.edu +## +use File::Find; + +if ( scalar(@ARGV) < 1 ) { die "$0 requires path to CASA installation to be patched..." } +if ( scalar(@ARGV) > 1 ) { die "$0 requires only one parameter which is the path to CASA installation to be patched..." } + +unless ( -d $ARGV[0] ) { die "$0 requires path to CASA installation (which should be a directory) to be patched..." } + +sub locate_script { + if ( -f $_ && $_ eq "update-data" ) { + print "substituting $File::Find::dir/$_\n"; + open( CONTENTS, "< $_" ); + my @contents = ; + close( CONTENTS ); + open( CONTENTS, "> $_" ); + foreach my $x ( @contents ) { + $x =~ s@(?:rsync://svn.cv.nrao.edu/casa-data|rsync://casa.nrao.edu/casa-data)@rsync://casa-rsync.nrao.edu/casa-data@g; + print CONTENTS "$x"; + } + close( CONTENTS ); + } +} + +find( { wanted => \&locate_script }, $ARGV[0] ); \ No newline at end of file From 9a23bf265e782c01686570eb4a8d35c9bfb0aab4 Mon Sep 17 00:00:00 2001 From: Helen Kirk Date: Tue, 25 Jun 2024 11:04:52 -0700 Subject: [PATCH 2/2] New code to build CASA versions 6.5.6-6.6.3, using new Ubuntu22.04 base on harbor. Also added astroquery functionality; initiate using /opt/casa/bin/python3 --- .../Dockerfiles/casa/version-6.6/Dockerfile | 72 + .../Dockerfiles/casa/version-6.6/Makefile | 56 + .../casa/version-6.6/admit/Doxyfile | 2362 ++ .../casa/version-6.6/admit/INSTALL | 109 + .../casa/version-6.6/admit/INSTALL.dev | 177 + .../casa/version-6.6/admit/LICENSE | 22 + .../casa/version-6.6/admit/Makefile | 320 + .../casa/version-6.6/admit/README.md | 49 + .../casa/version-6.6/admit/VERSIONS | 8 + .../casa/version-6.6/admit/admit/AT.py | 2083 ++ .../casa/version-6.6/admit/admit/Admit.py | 1984 ++ .../version-6.6/admit/admit/FlowManager.py | 1635 ++ .../version-6.6/admit/admit/ProjectManager.py | 345 + .../casa/version-6.6/admit/admit/Summary.py | 2067 ++ .../casa/version-6.6/admit/admit/__init__.py | 24 + .../admit/admit/at/BDPIngest_AT.py | 113 + .../admit/admit/at/ContinuumMap_AT.py | 5 + .../admit/admit/at/ContinuumSub_AT.py | 254 + .../admit/admit/at/CubeSpectrum_AT.py | 473 + .../admit/admit/at/CubeStats_AT.py | 630 + .../version-6.6/admit/admit/at/CubeSum_AT.py | 441 + .../admit/admit/at/DescriptionVector_AT.py | 6 + .../version-6.6/admit/admit/at/Export_AT.py | 149 + .../admit/admit/at/FeatureList_AT.py | 44 + .../version-6.6/admit/admit/at/File_AT.py | 103 + .../version-6.6/admit/admit/at/Flow11_AT.py | 215 + .../version-6.6/admit/admit/at/Flow1N_AT.py | 120 + .../version-6.6/admit/admit/at/FlowMN_AT.py | 108 + .../version-6.6/admit/admit/at/FlowN1_AT.py | 90 + .../admit/admit/at/GenerateSpectrum_AT.py | 339 + .../version-6.6/admit/admit/at/Ingest_AT.py | 873 + .../version-6.6/admit/admit/at/LineCube_AT.py | 325 + .../version-6.6/admit/admit/at/LineID_AT.py | 4949 ++++ .../admit/admit/at/LineSegment_AT.py | 392 + .../version-6.6/admit/admit/at/Moment_AT.py | 464 + .../admit/admit/at/OverlapIntegral_AT.py | 329 + .../version-6.6/admit/admit/at/PVCorr_AT.py | 409 + .../version-6.6/admit/admit/at/PVSlice_AT.py | 584 + .../admit/admit/at/PrincipalComponent_AT.py | 298 + .../version-6.6/admit/admit/at/Regrid_AT.py | 263 + .../version-6.6/admit/admit/at/SFind2D_AT.py | 449 + .../version-6.6/admit/admit/at/Smooth_AT.py | 348 + .../admit/admit/at/SpectralMap_AT.py | 7 + .../version-6.6/admit/admit/at/SpwCube_AT.py | 7 + .../version-6.6/admit/admit/at/Template_AT.py | 291 + .../version-6.6/admit/admit/at/Test_AT.py | 200 + .../version-6.6/admit/admit/at/__init__.py | 39 + .../admit/admit/at/test/__init__.py | 0 .../admit/at/test/integrationtest_example.py | 55 + .../admit/at/test/integrationtest_fail.py | 61 + .../at/test/integrationtest_helloworld.csh | 35 + .../admit/at/test/integrationtest_linecube.py | 140 + .../admit/at/test/integrationtest_lineid.py | 98 + .../at/test/integrationtest_linesegment.py | 90 + .../admit/at/test/integrationtest_moment.py | 128 + .../admit/at/test/integrationtest_smooth.py | 128 + .../admit/at/test/mom_integ_test_input.fits | 10462 +++++++++ .../admit/admit/at/test/runIntegTests.py | 18 + .../admit/admit/at/test/runtest_helloworld.py | 102 + .../admit/admit/at/test/spw_test_object.bdp | 97 + .../admit/admit/at/test/test_cubestats.py | 44 + .../admit/admit/at/test/test_cubesum.py | 46 + .../admit/admit/at/test/test_file.py | 61 + .../admit/admit/at/test/test_helloworld.py | 97 + .../admit/admit/at/test/test_ingest.py | 101 + .../admit/admit/at/test/test_moment.py | 105 + .../admit/admit/at/test/unittest_CubeSum.py | 49 + .../casa/version-6.6/admit/admit/bdp/BDP.py | 416 + .../admit/admit/bdp/CubeSpectrum_BDP.py | 23 + .../admit/admit/bdp/CubeStats_BDP.py | 54 + .../admit/admit/bdp/DescriptionVector_BDP.py | 7 + .../admit/admit/bdp/Dual_inherit_BDP.py | 35 + .../admit/admit/bdp/FeatureList_BDP.py | 9 + .../version-6.6/admit/admit/bdp/File_BDP.py | 79 + .../version-6.6/admit/admit/bdp/Image_BDP.py | 108 + .../admit/admit/bdp/Image_inherit_BDP.py | 21 + .../admit/admit/bdp/LineCube_BDP.py | 50 + .../admit/admit/bdp/LineImage_BDP.py | 9 + .../admit/admit/bdp/LineList_BDP.py | 293 + .../admit/admit/bdp/LineSegment_BDP.py | 90 + .../admit/admit/bdp/LineTable_BDP.py | 9 + .../version-6.6/admit/admit/bdp/Line_BDP.py | 44 + .../version-6.6/admit/admit/bdp/Moment_BDP.py | 45 + .../admit/admit/bdp/OverlapIntegral_BDP.py | 12 + .../version-6.6/admit/admit/bdp/PVCorr_BDP.py | 24 + .../admit/admit/bdp/PVSlice_BDP.py | 46 + .../admit/admit/bdp/PeakPointPlot_BDP.py | 9 + .../admit/admit/bdp/SourceList_BDP.py | 63 + .../admit/admit/bdp/SpectralMap_BDP.py | 7 + .../admit/admit/bdp/SpwCube_BDP.py | 23 + .../version-6.6/admit/admit/bdp/Table_BDP.py | 43 + .../admit/admit/bdp/Table_inherit_BDP.py | 27 + .../version-6.6/admit/admit/bdp/__init__.py | 34 + .../admit/admit/recipes/Archive_Pipeline.py | 190 + .../admit/admit/recipes/Archive_SpecLine.py | 154 + .../admit/admit/recipes/Line_Moment.py | 131 + .../version-6.6/admit/admit/recipes/README | 6 + .../admit/admit/recipes/Source_Find.py | 117 + .../admit/admit/recipes/Source_Spectra.py | 109 + .../admit/admit/recipes/__init__.py | 9 + .../version-6.6/admit/admit/recipes/recipe.py | 61 + .../admit/admit/recipes/recipe_example.py | 77 + .../admit/admit/recipes/recipeutils.py | 113 + .../admit/admit/test/LineIDBaseline.py | 126 + .../version-6.6/admit/admit/test/admit0.py | 64 + .../version-6.6/admit/admit/test/admit1.py | 703 + .../admit/admit/test/admit1_lineid.py | 100 + .../version-6.6/admit/admit/test/admit1m3.py | 334 + .../version-6.6/admit/admit/test/admit1s.py | 480 + .../version-6.6/admit/admit/test/admit2.py | 259 + .../version-6.6/admit/admit/test/admit3.py | 139 + .../version-6.6/admit/admit/test/admit4.py | 188 + .../version-6.6/admit/admit/test/admit5.py | 85 + .../version-6.6/admit/admit/test/flow2.py | 48 + .../version-6.6/admit/admit/test/flow4.py | 69 + .../version-6.6/admit/admit/test/flowN.py | 33 + .../admit/admit/test/hello_multiworld1.py | 35 + .../admit/test/integrationtest_SegmentVsID.py | 172 + .../admit/admit/test/integrationtest_data.csh | 91 + .../version-6.6/admit/admit/test/listadmit | 52 + .../version-6.6/admit/admit/test/listfits | 71 + .../casa/version-6.6/admit/admit/test/pca.py | 19 + .../version-6.6/admit/admit/test/plttest.py | 26 + .../admit/admit/test/regressiontest_csp.csh | 55 + .../admit/test/regressiontest_test253.csh | 56 + .../admit/admit/test/run_M3-bb.csh | 96 + .../admit/admit/test/test_Admit1.py | 57 + .../version-6.6/admit/admit/test/test_FM.py | 130 + .../version-6.6/admit/admit/test/test_Flow.py | 120 + .../admit/admit/test/test_Flow0.py | 69 + .../admit/admit/test/test_Flow1N.py | 75 + .../admit/admit/test/test_FlowMN.py | 118 + .../admit/admit/test/test_FlowN1.py | 66 + .../admit/admit/test/test_Flow_again.py | 52 + .../admit/admit/test/test_Flow_many.py | 80 + .../admit/admit/test/test_pattern.py | 864 + .../admit/admit/test/unittest_AT.py | 402 + .../admit/admit/test/unittest_Admit.py | 453 + .../admit/admit/test/unittest_FM.py | 380 + .../admit/admit/test/unittest_Fail.py | 25 + .../admit/admit/test/unittest_Summary.py | 30 + .../admit/admit/test/unittest_multiflow1.py | 98 + .../admit/admit/test/unittest_multiflow2.py | 181 + .../admit/admit/test/unittest_variflow.py | 69 + .../version-6.6/admit/admit/util/APlot.py | 1351 ++ .../admit/admit/util/AbstractPlot.py | 285 + .../version-6.6/admit/admit/util/AdmitHTTP.py | 185 + .../admit/admit/util/AdmitLogging.py | 557 + .../version-6.6/admit/admit/util/ImPlot.py | 105 + .../version-6.6/admit/admit/util/Image.py | 441 + .../casa/version-6.6/admit/admit/util/Line.py | 219 + .../version-6.6/admit/admit/util/LineData.py | 372 + .../version-6.6/admit/admit/util/LinePlot.py | 126 + .../admit/admit/util/MultiImage.py | 199 + .../admit/admit/util/PlotControl.py | 195 + .../version-6.6/admit/admit/util/Segments.py | 559 + .../version-6.6/admit/admit/util/Source.py | 88 + .../admit/admit/util/SpectralLineSearch.py | 852 + .../version-6.6/admit/admit/util/Spectrum.py | 962 + .../admit/admit/util/SpectrumIngest.py | 436 + .../admit/admit/util/Splatalogue.py | 715 + .../version-6.6/admit/admit/util/Table.py | 749 + .../version-6.6/admit/admit/util/Tier1DB.py | 270 + .../version-6.6/admit/admit/util/UtilBase.py | 112 + .../casa/version-6.6/admit/admit/util/VLSR.py | 169 + .../version-6.6/admit/admit/util/__init__.py | 37 + .../version-6.6/admit/admit/util/admit_ast.py | 323 + .../version-6.6/admit/admit/util/bdp_types.py | 137 + .../version-6.6/admit/admit/util/casautil.py | 379 + .../util/continuumsubtraction/__init__.py | 7 + .../spectral/ContinuumSubtraction.py | 134 + .../continuumsubtraction/spectral/__init__.py | 3 + .../spectral/algorithms/PolyFit.py | 128 + .../spectral/algorithms/SplineFit.py | 143 + .../spectral/algorithms/__init__.py | 2 + .../admit/admit/util/filter/Filter1D.py | 463 + .../admit/admit/util/filter/Filter2D.py | 422 + .../admit/admit/util/filter/__init__.py | 5 + .../admit/util/peakfinder/FindPeaksCWT.py | 120 + .../admit/admit/util/peakfinder/PeakDetect.py | 240 + .../admit/admit/util/peakfinder/PeakFinder.py | 200 + .../admit/admit/util/peakfinder/PeakUtils.py | 452 + .../admit/admit/util/peakfinder/__init__.py | 11 + .../util/segmentfinder/ADMITSegmentFinder.py | 393 + .../util/segmentfinder/ASAPSegmentFinder.py | 376 + .../admit/util/segmentfinder/SegmentFinder.py | 179 + .../admit/util/segmentfinder/__init__.py | 7 + .../version-6.6/admit/admit/util/species.json | 1 + .../version-6.6/admit/admit/util/specutil.py | 453 + .../version-6.6/admit/admit/util/stats.py | 161 + .../admit/util/test/unittest_AdmitLogging.py | 324 + .../admit/admit/util/test/unittest_Image.py | 59 + .../admit/admit/util/test/unittest_Line.py | 105 + .../admit/util/test/unittest_LineData.py | 299 + .../admit/admit/util/test/unittest_Source.py | 57 + .../admit/util/test/unittest_Spectrum.py | 60 + .../admit/admit/util/test/unittest_Table.py | 309 + .../admit/admit/util/test/unittest_Tier1DB.py | 168 + .../admit/admit/util/test/unittest_VLSR.py | 66 + .../admit/admit/util/test/unittest_stats.py | 101 + .../admit/admit/util/test/unittest_utils.py | 343 + .../version-6.6/admit/admit/util/utils.py | 1569 ++ .../casa/version-6.6/admit/admit/version.py | 9 + .../admit/admit/xmlio/AdmitParser.py | 652 + .../admit/admit/xmlio/BDPReader.py | 82 + .../admit/admit/xmlio/DTDParser.py | 188 + .../admit/admit/xmlio/DtdReader.py | 144 + .../admit/admit/xmlio/ErrorHandler.py | 71 + .../version-6.6/admit/admit/xmlio/Parser.py | 199 + .../admit/admit/xmlio/XmlWriter.py | 269 + .../version-6.6/admit/admit/xmlio/__init__.py | 6 + .../version-6.6/admit/admit/xmlio/bdpTest.py | 56 + .../admit/admit/xmlio/dtd/BDPIngest_AT.dtd | 42 + .../admit/admit/xmlio/dtd/ContinuumMap_AT.dtd | 40 + .../admit/admit/xmlio/dtd/ContinuumSub_AT.dtd | 48 + .../admit/admit/xmlio/dtd/CubeSpectrum_AT.dtd | 50 + .../admit/xmlio/dtd/CubeSpectrum_BDP.dtd | 81 + .../admit/admit/xmlio/dtd/CubeStats_AT.dtd | 50 + 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file mode 100644 index 0000000..9a24988 --- /dev/null +++ b/science-containers/Dockerfiles/casa/version-6.6/Dockerfile @@ -0,0 +1,72 @@ +FROM images.canfar.net/skaha/ubuntu:22.04 + +# setup all required env variables +ARG CASA_RELEASE +ENV CASA_RELEASE=${CASA_RELEASE} +ENV PATH /usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/casa/bin + +# unpack and move casa databundle to container +ADD ${CASA_RELEASE}.tar.xz /opt/ + +# chown because the untarred casa has wrong owner/group +##NB: commands below revert back to the pre-CASA6.4 terminology, as the version of python AND el7 (etc) is now specified everywhere in the full path. +##NB2: pipelines may be an exception. +## (the %%-py* string removes the -py3.X part of the CASA_RELEASE variable name for the directory structure) +#RUN chown -R root:root /opt/${CASA_RELEASE%%-py*} && ln -s /opt/${CASA_RELEASE%%-py*} /opt/casa +RUN chown -R root:root /opt/${CASA_RELEASE} && ln -s /opt/${CASA_RELEASE} /opt/casa + +# +## add the admit enhancement (issue #25) +RUN mkdir /opt/admit +ADD admit /opt/admit +RUN cd /opt/admit && \ + autoconf && ./configure --with-casa-root=/opt/${CASA_RELEASE} + +# Allow runtime symlink creation to the casa-data-repository +# Create a dangling symlink to casa-data-repository so that after deployment +# the symlink will link to the actual casa-data-repository in storage. +RUN mkdir -p /arc/projects/casa-data-repository +RUN rm -rf /opt/${CASA_RELEASE}/data && \ + ln -s /arc/projects/casa-data-repository/ /opt/${CASA_RELEASE}/data +RUN chmod 777 /opt/${CASA_RELEASE} +RUN cd /opt/${CASA_RELEASE} && \ + REPLACED_DATA=`find lib -name __data__` && \ + chmod 777 ${REPLACED_DATA}/.. && \ + rm -rf ${REPLACED_DATA} && \ + ln -s /arc/projects/casa-data-repository/ /opt/${CASA_RELEASE}/${REPLACED_DATA} +RUN rm -rf /arc + +#Add in analysisUtils package +RUN mkdir /opt/casa/analysisUtils +RUN cd /opt/casa/analysisUtils && wget ftp://ftp.cv.nrao.edu/pub/casaguides/analysis_scripts.tar && tar -xvf analysis_scripts.tar +#(if above doesn't work, can manually download the package and add as below) +#ADD ./analysis_scripts.tar /opt/casa/analysisUtils/ +#NB: the analysisUtils path is added to the CASA startup file in the init.sh script +# (needs access to user's $HOME) + +##NEW for CASA6.*: explicitly add in astropy +##Instructions here: https://casadocs.readthedocs.io/en/latest/notebooks/frequently-asked-questions.html +RUN /opt/${CASA_RELEASE}/bin/pip3 install astropy +#also add astroquery (astroquery.readthedocs.io/en/latest/) +RUN /opt/${CASA_RELEASE}/bin/python3 -m pip install --pre astroquery[all] + + + +RUN mkdir /skaha +ADD init.sh /skaha/ + +# generate missing dbus uuid (issue #47) +RUN dbus-uuidgen --ensure + +ADD nsswitch.conf /etc/ + +WORKDIR /opt +COPY extract-casaviewer.sh . +#below suggested by Seb to help with viewer script & variables, doesn't work +# here for some reason, and generally hasn't been effective +#ENV PYTHONPATH /opt/${CASA_RELEASE%%-py*}/lib/py/lib/python3.8/site-packages +RUN bash extract-casaviewer.sh && rm extract-casaviewer.sh + +RUN chmod 777 -R /opt/squashfs-root /opt/squashfs-root/usr /opt/squashfs-root/usr/* + +CMD [ "/skaha/init.sh" ] diff --git a/science-containers/Dockerfiles/casa/version-6.6/Makefile b/science-containers/Dockerfiles/casa/version-6.6/Makefile new file mode 100644 index 0000000..3bf1ce0 --- /dev/null +++ b/science-containers/Dockerfiles/casa/version-6.6/Makefile @@ -0,0 +1,56 @@ +# NB: before using, uncomment the version to be built +# NB2: One manual edit is also required in the extract_casaviewer.sh script, +# about halfway down, to again select the command associated with setting up +# plotms for the desired version of CASA + + +VERSIONS_PIPELINE = \ +# casa-6.1.1-15-pipeline-2020.1.0.40 + +#!NB >casa6.5.6 versions have a different directory naming structure again +VERSIONS = \ + casa-6.6.3-22-py3.8.el7 +# casa-6.6.0-20-py3.8.el7 +# casa-6.5.6-22-py3.8.el7 + +DOCKER_REPO_BASE=images.canfar.net/casa-6/casa + +.PHONY: build clean run + +all: build-pipeline build + +build-pipeline: + @- $(foreach V,$(VERSIONS_PIPELINE), \ + ./download.sh $(V) pipeline ; \ + docker build --build-arg CASA_RELEASE=$(V) -t ${DOCKER_REPO_BASE}:$(V) .; \ + ) + +build: + @- $(foreach V,$(VERSIONS), \ + ./download.sh $(V) current ; \ + docker build --build-arg CASA_RELEASE=$(V) -t ${DOCKER_REPO_BASE}:$(V) .; \ + ) + +clean-pipeline: + @- $(foreach V,$(VERSIONS_PIPELINE), \ + docker rmi ${DOCKER_REPO_BASE}:$(V) ; \ + ) + +clean: + @- $(foreach V,$(VERSIONS), \ + docker rmi ${DOCKER_REPO_BASE}:$(V) ; \ + ) + +clean-all: clean-old clean-pipeline clean + +upload-pipeline: build-pipeline + @- $(foreach V,$(VERSIONS_PIPELINE), \ + docker push ${DOCKER_REPO_BASE}:$(V) ; \ + ) + +upload: build + @- $(foreach V,$(VERSIONS), \ + docker push ${DOCKER_REPO_BASE}:$(V) ; \ + ) + +upload-all: upload-pipeline upload diff --git a/science-containers/Dockerfiles/casa/version-6.6/admit/Doxyfile b/science-containers/Dockerfiles/casa/version-6.6/admit/Doxyfile new file mode 100644 index 0000000..912b40d --- /dev/null +++ b/science-containers/Dockerfiles/casa/version-6.6/admit/Doxyfile @@ -0,0 +1,2362 @@ +# Doxyfile 1.8.9.1 + +# This file describes the settings to be used by the documentation system +# doxygen (www.doxygen.org) for a project. +# +# All text after a double hash (##) is considered a comment and is placed in +# front of the TAG it is preceding. +# +# All text after a single hash (#) is considered a comment and will be ignored. +# The format is: +# TAG = value [value, ...] +# For lists, items can also be appended using: +# TAG += value [value, ...] +# Values that contain spaces should be placed between quotes (\" \"). + +#--------------------------------------------------------------------------- +# Project related configuration options +#--------------------------------------------------------------------------- + +# This tag specifies the encoding used for all characters in the config file +# that follow. The default is UTF-8 which is also the encoding used for all text +# before the first occurrence of this tag. Doxygen uses libiconv (or the iconv +# built into libc) for the transcoding. See http://www.gnu.org/software/libiconv +# for the list of possible encodings. +# The default value is: UTF-8. + +DOXYFILE_ENCODING = UTF-8 + +# The PROJECT_NAME tag is a single word (or a sequence of words surrounded by +# double-quotes, unless you are using Doxywizard) that should identify the +# project for which the documentation is generated. This name is used in the +# title of most generated pages and in a few other places. +# The default value is: My Project. + +PROJECT_NAME = ADMIT + +# The PROJECT_NUMBER tag can be used to enter a project or revision number. This +# could be handy for archiving the generated documentation or if some version +# control system is used. + +PROJECT_NUMBER = + +# Using the PROJECT_BRIEF tag one can provide an optional one line description +# for a project that appears at the top of each page and should give viewer a +# quick idea about the purpose of the project. Keep the description short. + +PROJECT_BRIEF = "The ALMA Data Mining Toolkit" + +# With the PROJECT_LOGO tag one can specify a logo or an icon that is included +# in the documentation. The maximum height of the logo should not exceed 55 +# pixels and the maximum width should not exceed 200 pixels. Doxygen will copy +# the logo to the output directory. + +PROJECT_LOGO = + +# The OUTPUT_DIRECTORY tag is used to specify the (relative or absolute) path +# into which the generated documentation will be written. If a relative path is +# entered, it will be relative to the location where doxygen was started. If +# left blank the current directory will be used. + +OUTPUT_DIRECTORY = doc + +# If the CREATE_SUBDIRS tag is set to YES then doxygen will create 4096 sub- +# directories (in 2 levels) under the output directory of each output format and +# will distribute the generated files over these directories. Enabling this +# option can be useful when feeding doxygen a huge amount of source files, where +# putting all generated files in the same directory would otherwise causes +# performance problems for the file system. +# The default value is: NO. + +CREATE_SUBDIRS = NO + +# If the ALLOW_UNICODE_NAMES tag is set to YES, doxygen will allow non-ASCII +# characters to appear in the names of generated files. If set to NO, non-ASCII +# characters will be escaped, for example _xE3_x81_x84 will be used for Unicode +# U+3044. +# The default value is: NO. + +ALLOW_UNICODE_NAMES = NO + +# The OUTPUT_LANGUAGE tag is used to specify the language in which all +# documentation generated by doxygen is written. Doxygen will use this +# information to generate all constant output in the proper language. +# Possible values are: Afrikaans, Arabic, Armenian, Brazilian, Catalan, Chinese, +# Chinese-Traditional, Croatian, Czech, Danish, Dutch, English (United States), +# Esperanto, Farsi (Persian), Finnish, French, German, Greek, Hungarian, +# Indonesian, Italian, Japanese, Japanese-en (Japanese with English messages), +# Korean, Korean-en (Korean with English messages), Latvian, Lithuanian, +# Macedonian, Norwegian, Persian (Farsi), Polish, Portuguese, Romanian, Russian, +# Serbian, Serbian-Cyrillic, Slovak, Slovene, Spanish, Swedish, Turkish, +# Ukrainian and Vietnamese. +# The default value is: English. + +OUTPUT_LANGUAGE = English + +# If the BRIEF_MEMBER_DESC tag is set to YES, doxygen will include brief member +# descriptions after the members that are listed in the file and class +# documentation (similar to Javadoc). Set to NO to disable this. +# The default value is: YES. + +BRIEF_MEMBER_DESC = YES + +# If the REPEAT_BRIEF tag is set to YES, doxygen will prepend the brief +# description of a member or function before the detailed description +# +# Note: If both HIDE_UNDOC_MEMBERS and BRIEF_MEMBER_DESC are set to NO, the +# brief descriptions will be completely suppressed. +# The default value is: YES. + +REPEAT_BRIEF = YES + +# This tag implements a quasi-intelligent brief description abbreviator that is +# used to form the text in various listings. Each string in this list, if found +# as the leading text of the brief description, will be stripped from the text +# and the result, after processing the whole list, is used as the annotated +# text. Otherwise, the brief description is used as-is. If left blank, the +# following values are used ($name is automatically replaced with the name of +# the entity):The $name class, The $name widget, The $name file, is, provides, +# specifies, contains, represents, a, an and the. + +ABBREVIATE_BRIEF = + +# If the ALWAYS_DETAILED_SEC and REPEAT_BRIEF tags are both set to YES then +# doxygen will generate a detailed section even if there is only a brief +# description. +# The default value is: NO. + +ALWAYS_DETAILED_SEC = NO + +# If the INLINE_INHERITED_MEMB tag is set to YES, doxygen will show all +# inherited members of a class in the documentation of that class as if those +# members were ordinary class members. Constructors, destructors and assignment +# operators of the base classes will not be shown. +# The default value is: NO. + +INLINE_INHERITED_MEMB = NO + +# If the FULL_PATH_NAMES tag is set to YES, doxygen will prepend the full path +# before files name in the file list and in the header files. If set to NO the +# shortest path that makes the file name unique will be used +# The default value is: YES. + +FULL_PATH_NAMES = YES + +# The STRIP_FROM_PATH tag can be used to strip a user-defined part of the path. +# Stripping is only done if one of the specified strings matches the left-hand +# part of the path. The tag can be used to show relative paths in the file list. +# If left blank the directory from which doxygen is run is used as the path to +# strip. +# +# Note that you can specify absolute paths here, but also relative paths, which +# will be relative from the directory where doxygen is started. +# This tag requires that the tag FULL_PATH_NAMES is set to YES. + +STRIP_FROM_PATH = + +# The STRIP_FROM_INC_PATH tag can be used to strip a user-defined part of the +# path mentioned in the documentation of a class, which tells the reader which +# header file to include in order to use a class. If left blank only the name of +# the header file containing the class definition is used. Otherwise one should +# specify the list of include paths that are normally passed to the compiler +# using the -I flag. + +STRIP_FROM_INC_PATH = + +# If the SHORT_NAMES tag is set to YES, doxygen will generate much shorter (but +# less readable) file names. This can be useful is your file systems doesn't +# support long names like on DOS, Mac, or CD-ROM. +# The default value is: NO. + +SHORT_NAMES = NO + +# If the JAVADOC_AUTOBRIEF tag is set to YES then doxygen will interpret the +# first line (until the first dot) of a Javadoc-style comment as the brief +# description. If set to NO, the Javadoc-style will behave just like regular Qt- +# style comments (thus requiring an explicit @brief command for a brief +# description.) +# The default value is: NO. + +JAVADOC_AUTOBRIEF = NO + +# If the QT_AUTOBRIEF tag is set to YES then doxygen will interpret the first +# line (until the first dot) of a Qt-style comment as the brief description. If +# set to NO, the Qt-style will behave just like regular Qt-style comments (thus +# requiring an explicit \brief command for a brief description.) +# The default value is: NO. + +QT_AUTOBRIEF = NO + +# The MULTILINE_CPP_IS_BRIEF tag can be set to YES to make doxygen treat a +# multi-line C++ special comment block (i.e. a block of //! or /// comments) as +# a brief description. This used to be the default behavior. The new default is +# to treat a multi-line C++ comment block as a detailed description. Set this +# tag to YES if you prefer the old behavior instead. +# +# Note that setting this tag to YES also means that rational rose comments are +# not recognized any more. +# The default value is: NO. + +MULTILINE_CPP_IS_BRIEF = NO + +# If the INHERIT_DOCS tag is set to YES then an undocumented member inherits the +# documentation from any documented member that it re-implements. +# The default value is: YES. + +INHERIT_DOCS = YES + +# If the SEPARATE_MEMBER_PAGES tag is set to YES then doxygen will produce a new +# page for each member. If set to NO, the documentation of a member will be part +# of the file/class/namespace that contains it. +# The default value is: NO. + +SEPARATE_MEMBER_PAGES = NO + +# The TAB_SIZE tag can be used to set the number of spaces in a tab. Doxygen +# uses this value to replace tabs by spaces in code fragments. +# Minimum value: 1, maximum value: 16, default value: 4. + +TAB_SIZE = 4 + +# This tag can be used to specify a number of aliases that act as commands in +# the documentation. An alias has the form: +# name=value +# For example adding +# "sideeffect=@par Side Effects:\n" +# will allow you to put the command \sideeffect (or @sideeffect) in the +# documentation, which will result in a user-defined paragraph with heading +# "Side Effects:". You can put \n's in the value part of an alias to insert +# newlines. + +ALIASES = + +# This tag can be used to specify a number of word-keyword mappings (TCL only). +# A mapping has the form "name=value". For example adding "class=itcl::class" +# will allow you to use the command class in the itcl::class meaning. + +TCL_SUBST = + +# Set the OPTIMIZE_OUTPUT_FOR_C tag to YES if your project consists of C sources +# only. Doxygen will then generate output that is more tailored for C. For +# instance, some of the names that are used will be different. The list of all +# members will be omitted, etc. +# The default value is: NO. + +OPTIMIZE_OUTPUT_FOR_C = NO + +# Set the OPTIMIZE_OUTPUT_JAVA tag to YES if your project consists of Java or +# Python sources only. Doxygen will then generate output that is more tailored +# for that language. For instance, namespaces will be presented as packages, +# qualified scopes will look different, etc. +# The default value is: NO. + +OPTIMIZE_OUTPUT_JAVA = YES + +# Set the OPTIMIZE_FOR_FORTRAN tag to YES if your project consists of Fortran +# sources. Doxygen will then generate output that is tailored for Fortran. +# The default value is: NO. + +OPTIMIZE_FOR_FORTRAN = NO + +# Set the OPTIMIZE_OUTPUT_VHDL tag to YES if your project consists of VHDL +# sources. Doxygen will then generate output that is tailored for VHDL. +# The default value is: NO. + +OPTIMIZE_OUTPUT_VHDL = NO + +# Doxygen selects the parser to use depending on the extension of the files it +# parses. With this tag you can assign which parser to use for a given +# extension. Doxygen has a built-in mapping, but you can override or extend it +# using this tag. The format is ext=language, where ext is a file extension, and +# language is one of the parsers supported by doxygen: IDL, Java, Javascript, +# C#, C, C++, D, PHP, Objective-C, Python, Fortran (fixed format Fortran: +# FortranFixed, free formatted Fortran: FortranFree, unknown formatted Fortran: +# Fortran. In the later case the parser tries to guess whether the code is fixed +# or free formatted code, this is the default for Fortran type files), VHDL. For +# instance to make doxygen treat .inc files as Fortran files (default is PHP), +# and .f files as C (default is Fortran), use: inc=Fortran f=C. +# +# Note: For files without extension you can use no_extension as a placeholder. +# +# Note that for custom extensions you also need to set FILE_PATTERNS otherwise +# the files are not read by doxygen. + +EXTENSION_MAPPING = + +# If the MARKDOWN_SUPPORT tag is enabled then doxygen pre-processes all comments +# according to the Markdown format, which allows for more readable +# documentation. See http://daringfireball.net/projects/markdown/ for details. +# The output of markdown processing is further processed by doxygen, so you can +# mix doxygen, HTML, and XML commands with Markdown formatting. Disable only in +# case of backward compatibilities issues. +# The default value is: YES. + +MARKDOWN_SUPPORT = YES + +# When enabled doxygen tries to link words that correspond to documented +# classes, or namespaces to their corresponding documentation. Such a link can +# be prevented in individual cases by putting a % sign in front of the word or +# globally by setting AUTOLINK_SUPPORT to NO. +# The default value is: YES. + +AUTOLINK_SUPPORT = YES + +# If you use STL classes (i.e. std::string, std::vector, etc.) but do not want +# to include (a tag file for) the STL sources as input, then you should set this +# tag to YES in order to let doxygen match functions declarations and +# definitions whose arguments contain STL classes (e.g. func(std::string); +# versus func(std::string) {}). This also make the inheritance and collaboration +# diagrams that involve STL classes more complete and accurate. +# The default value is: NO. + +BUILTIN_STL_SUPPORT = NO + +# If you use Microsoft's C++/CLI language, you should set this option to YES to +# enable parsing support. +# The default value is: NO. + +CPP_CLI_SUPPORT = NO + +# Set the SIP_SUPPORT tag to YES if your project consists of sip (see: +# http://www.riverbankcomputing.co.uk/software/sip/intro) sources only. Doxygen +# will parse them like normal C++ but will assume all classes use public instead +# of private inheritance when no explicit protection keyword is present. +# The default value is: NO. + +SIP_SUPPORT = NO + +# For Microsoft's IDL there are propget and propput attributes to indicate +# getter and setter methods for a property. Setting this option to YES will make +# doxygen to replace the get and set methods by a property in the documentation. +# This will only work if the methods are indeed getting or setting a simple +# type. If this is not the case, or you want to show the methods anyway, you +# should set this option to NO. +# The default value is: YES. + +IDL_PROPERTY_SUPPORT = YES + +# If member grouping is used in the documentation and the DISTRIBUTE_GROUP_DOC +# tag is set to YES then doxygen will reuse the documentation of the first +# member in the group (if any) for the other members of the group. By default +# all members of a group must be documented explicitly. +# The default value is: NO. + +DISTRIBUTE_GROUP_DOC = NO + +# Set the SUBGROUPING tag to YES to allow class member groups of the same type +# (for instance a group of public functions) to be put as a subgroup of that +# type (e.g. under the Public Functions section). Set it to NO to prevent +# subgrouping. Alternatively, this can be done per class using the +# \nosubgrouping command. +# The default value is: YES. + +SUBGROUPING = YES + +# When the INLINE_GROUPED_CLASSES tag is set to YES, classes, structs and unions +# are shown inside the group in which they are included (e.g. using \ingroup) +# instead of on a separate page (for HTML and Man pages) or section (for LaTeX +# and RTF). +# +# Note that this feature does not work in combination with +# SEPARATE_MEMBER_PAGES. +# The default value is: NO. + +INLINE_GROUPED_CLASSES = NO + +# When the INLINE_SIMPLE_STRUCTS tag is set to YES, structs, classes, and unions +# with only public data fields or simple typedef fields will be shown inline in +# the documentation of the scope in which they are defined (i.e. file, +# namespace, or group documentation), provided this scope is documented. If set +# to NO, structs, classes, and unions are shown on a separate page (for HTML and +# Man pages) or section (for LaTeX and RTF). +# The default value is: NO. + +INLINE_SIMPLE_STRUCTS = NO + +# When TYPEDEF_HIDES_STRUCT tag is enabled, a typedef of a struct, union, or +# enum is documented as struct, union, or enum with the name of the typedef. So +# typedef struct TypeS {} TypeT, will appear in the documentation as a struct +# with name TypeT. When disabled the typedef will appear as a member of a file, +# namespace, or class. And the struct will be named TypeS. This can typically be +# useful for C code in case the coding convention dictates that all compound +# types are typedef'ed and only the typedef is referenced, never the tag name. +# The default value is: NO. + +TYPEDEF_HIDES_STRUCT = NO + +# The size of the symbol lookup cache can be set using LOOKUP_CACHE_SIZE. This +# cache is used to resolve symbols given their name and scope. Since this can be +# an expensive process and often the same symbol appears multiple times in the +# code, doxygen keeps a cache of pre-resolved symbols. If the cache is too small +# doxygen will become slower. If the cache is too large, memory is wasted. The +# cache size is given by this formula: 2^(16+LOOKUP_CACHE_SIZE). The valid range +# is 0..9, the default is 0, corresponding to a cache size of 2^16=65536 +# symbols. At the end of a run doxygen will report the cache usage and suggest +# the optimal cache size from a speed point of view. +# Minimum value: 0, maximum value: 9, default value: 0. + +LOOKUP_CACHE_SIZE = 0 + +#--------------------------------------------------------------------------- +# Build related configuration options +#--------------------------------------------------------------------------- + +# If the EXTRACT_ALL tag is set to YES, doxygen will assume all entities in +# documentation are documented, even if no documentation was available. Private +# class members and static file members will be hidden unless the +# EXTRACT_PRIVATE respectively EXTRACT_STATIC tags are set to YES. +# Note: This will also disable the warnings about undocumented members that are +# normally produced when WARNINGS is set to YES. +# The default value is: NO. + +EXTRACT_ALL = NO + +# If the EXTRACT_PRIVATE tag is set to YES, all private members of a class will +# be included in the documentation. +# The default value is: NO. + +EXTRACT_PRIVATE = NO + +# If the EXTRACT_PACKAGE tag is set to YES, all members with package or internal +# scope will be included in the documentation. +# The default value is: NO. + +EXTRACT_PACKAGE = NO + +# If the EXTRACT_STATIC tag is set to YES, all static members of a file will be +# included in the documentation. +# The default value is: NO. + +EXTRACT_STATIC = NO + +# If the EXTRACT_LOCAL_CLASSES tag is set to YES, classes (and structs) defined +# locally in source files will be included in the documentation. If set to NO, +# only classes defined in header files are included. Does not have any effect +# for Java sources. +# The default value is: YES. + +EXTRACT_LOCAL_CLASSES = YES + +# This flag is only useful for Objective-C code. If set to YES, local methods, +# which are defined in the implementation section but not in the interface are +# included in the documentation. If set to NO, only methods in the interface are +# included. +# The default value is: NO. + +EXTRACT_LOCAL_METHODS = NO + +# If this flag is set to YES, the members of anonymous namespaces will be +# extracted and appear in the documentation as a namespace called +# 'anonymous_namespace{file}', where file will be replaced with the base name of +# the file that contains the anonymous namespace. By default anonymous namespace +# are hidden. +# The default value is: NO. + +EXTRACT_ANON_NSPACES = NO + +# If the HIDE_UNDOC_MEMBERS tag is set to YES, doxygen will hide all +# undocumented members inside documented classes or files. If set to NO these +# members will be included in the various overviews, but no documentation +# section is generated. This option has no effect if EXTRACT_ALL is enabled. +# The default value is: NO. + +HIDE_UNDOC_MEMBERS = NO + +# If the HIDE_UNDOC_CLASSES tag is set to YES, doxygen will hide all +# undocumented classes that are normally visible in the class hierarchy. If set +# to NO, these classes will be included in the various overviews. This option +# has no effect if EXTRACT_ALL is enabled. +# The default value is: NO. + +HIDE_UNDOC_CLASSES = NO + +# If the HIDE_FRIEND_COMPOUNDS tag is set to YES, doxygen will hide all friend +# (class|struct|union) declarations. If set to NO, these declarations will be +# included in the documentation. +# The default value is: NO. + +HIDE_FRIEND_COMPOUNDS = NO + +# If the HIDE_IN_BODY_DOCS tag is set to YES, doxygen will hide any +# documentation blocks found inside the body of a function. If set to NO, these +# blocks will be appended to the function's detailed documentation block. +# The default value is: NO. + +HIDE_IN_BODY_DOCS = NO + +# The INTERNAL_DOCS tag determines if documentation that is typed after a +# \internal command is included. If the tag is set to NO then the documentation +# will be excluded. Set it to YES to include the internal documentation. +# The default value is: NO. + +INTERNAL_DOCS = NO + +# If the CASE_SENSE_NAMES tag is set to NO then doxygen will only generate file +# names in lower-case letters. If set to YES, upper-case letters are also +# allowed. This is useful if you have classes or files whose names only differ +# in case and if your file system supports case sensitive file names. Windows +# and Mac users are advised to set this option to NO. +# The default value is: system dependent. + +CASE_SENSE_NAMES = YES + +# If the HIDE_SCOPE_NAMES tag is set to NO then doxygen will show members with +# their full class and namespace scopes in the documentation. If set to YES, the +# scope will be hidden. +# The default value is: NO. + +HIDE_SCOPE_NAMES = NO + +# If the HIDE_COMPOUND_REFERENCE tag is set to NO (default) then doxygen will +# append additional text to a page's title, such as Class Reference. If set to +# YES the compound reference will be hidden. +# The default value is: NO. + +HIDE_COMPOUND_REFERENCE= NO + +# If the SHOW_INCLUDE_FILES tag is set to YES then doxygen will put a list of +# the files that are included by a file in the documentation of that file. +# The default value is: YES. + +SHOW_INCLUDE_FILES = YES + +# If the SHOW_GROUPED_MEMB_INC tag is set to YES then Doxygen will add for each +# grouped member an include statement to the documentation, telling the reader +# which file to include in order to use the member. +# The default value is: NO. + +SHOW_GROUPED_MEMB_INC = NO + +# If the FORCE_LOCAL_INCLUDES tag is set to YES then doxygen will list include +# files with double quotes in the documentation rather than with sharp brackets. +# The default value is: NO. + +FORCE_LOCAL_INCLUDES = NO + +# If the INLINE_INFO tag is set to YES then a tag [inline] is inserted in the +# documentation for inline members. +# The default value is: YES. + +INLINE_INFO = YES + +# If the SORT_MEMBER_DOCS tag is set to YES then doxygen will sort the +# (detailed) documentation of file and class members alphabetically by member +# name. If set to NO, the members will appear in declaration order. +# The default value is: YES. + +SORT_MEMBER_DOCS = YES + +# If the SORT_BRIEF_DOCS tag is set to YES then doxygen will sort the brief +# descriptions of file, namespace and class members alphabetically by member +# name. If set to NO, the members will appear in declaration order. Note that +# this will also influence the order of the classes in the class list. +# The default value is: NO. + +SORT_BRIEF_DOCS = NO + +# If the SORT_MEMBERS_CTORS_1ST tag is set to YES then doxygen will sort the +# (brief and detailed) documentation of class members so that constructors and +# destructors are listed first. If set to NO the constructors will appear in the +# respective orders defined by SORT_BRIEF_DOCS and SORT_MEMBER_DOCS. +# Note: If SORT_BRIEF_DOCS is set to NO this option is ignored for sorting brief +# member documentation. +# Note: If SORT_MEMBER_DOCS is set to NO this option is ignored for sorting +# detailed member documentation. +# The default value is: NO. + +SORT_MEMBERS_CTORS_1ST = NO + +# If the SORT_GROUP_NAMES tag is set to YES then doxygen will sort the hierarchy +# of group names into alphabetical order. If set to NO the group names will +# appear in their defined order. +# The default value is: NO. + +SORT_GROUP_NAMES = NO + +# If the SORT_BY_SCOPE_NAME tag is set to YES, the class list will be sorted by +# fully-qualified names, including namespaces. If set to NO, the class list will +# be sorted only by class name, not including the namespace part. +# Note: This option is not very useful if HIDE_SCOPE_NAMES is set to YES. +# Note: This option applies only to the class list, not to the alphabetical +# list. +# The default value is: NO. + +SORT_BY_SCOPE_NAME = NO + +# If the STRICT_PROTO_MATCHING option is enabled and doxygen fails to do proper +# type resolution of all parameters of a function it will reject a match between +# the prototype and the implementation of a member function even if there is +# only one candidate or it is obvious which candidate to choose by doing a +# simple string match. By disabling STRICT_PROTO_MATCHING doxygen will still +# accept a match between prototype and implementation in such cases. +# The default value is: NO. + +STRICT_PROTO_MATCHING = NO + +# The GENERATE_TODOLIST tag can be used to enable (YES) or disable (NO) the todo +# list. This list is created by putting \todo commands in the documentation. +# The default value is: YES. + +GENERATE_TODOLIST = YES + +# The GENERATE_TESTLIST tag can be used to enable (YES) or disable (NO) the test +# list. This list is created by putting \test commands in the documentation. +# The default value is: YES. + +GENERATE_TESTLIST = YES + +# The GENERATE_BUGLIST tag can be used to enable (YES) or disable (NO) the bug +# list. This list is created by putting \bug commands in the documentation. +# The default value is: YES. + +GENERATE_BUGLIST = YES + +# The GENERATE_DEPRECATEDLIST tag can be used to enable (YES) or disable (NO) +# the deprecated list. This list is created by putting \deprecated commands in +# the documentation. +# The default value is: YES. + +GENERATE_DEPRECATEDLIST= YES + +# The ENABLED_SECTIONS tag can be used to enable conditional documentation +# sections, marked by \if ... \endif and \cond +# ... \endcond blocks. + +ENABLED_SECTIONS = + +# The MAX_INITIALIZER_LINES tag determines the maximum number of lines that the +# initial value of a variable or macro / define can have for it to appear in the +# documentation. If the initializer consists of more lines than specified here +# it will be hidden. Use a value of 0 to hide initializers completely. The +# appearance of the value of individual variables and macros / defines can be +# controlled using \showinitializer or \hideinitializer command in the +# documentation regardless of this setting. +# Minimum value: 0, maximum value: 10000, default value: 30. + +MAX_INITIALIZER_LINES = 30 + +# Set the SHOW_USED_FILES tag to NO to disable the list of files generated at +# the bottom of the documentation of classes and structs. If set to YES, the +# list will mention the files that were used to generate the documentation. +# The default value is: YES. + +SHOW_USED_FILES = YES + +# Set the SHOW_FILES tag to NO to disable the generation of the Files page. This +# will remove the Files entry from the Quick Index and from the Folder Tree View +# (if specified). +# The default value is: YES. + +SHOW_FILES = YES + +# Set the SHOW_NAMESPACES tag to NO to disable the generation of the Namespaces +# page. This will remove the Namespaces entry from the Quick Index and from the +# Folder Tree View (if specified). +# The default value is: YES. + +SHOW_NAMESPACES = YES + +# The FILE_VERSION_FILTER tag can be used to specify a program or script that +# doxygen should invoke to get the current version for each file (typically from +# the version control system). Doxygen will invoke the program by executing (via +# popen()) the command command input-file, where command is the value of the +# FILE_VERSION_FILTER tag, and input-file is the name of an input file provided +# by doxygen. Whatever the program writes to standard output is used as the file +# version. For an example see the documentation. + +FILE_VERSION_FILTER = + +# The LAYOUT_FILE tag can be used to specify a layout file which will be parsed +# by doxygen. The layout file controls the global structure of the generated +# output files in an output format independent way. To create the layout file +# that represents doxygen's defaults, run doxygen with the -l option. You can +# optionally specify a file name after the option, if omitted DoxygenLayout.xml +# will be used as the name of the layout file. +# +# Note that if you run doxygen from a directory containing a file called +# DoxygenLayout.xml, doxygen will parse it automatically even if the LAYOUT_FILE +# tag is left empty. + +LAYOUT_FILE = + +# The CITE_BIB_FILES tag can be used to specify one or more bib files containing +# the reference definitions. This must be a list of .bib files. The .bib +# extension is automatically appended if omitted. This requires the bibtex tool +# to be installed. See also http://en.wikipedia.org/wiki/BibTeX for more info. +# For LaTeX the style of the bibliography can be controlled using +# LATEX_BIB_STYLE. To use this feature you need bibtex and perl available in the +# search path. See also \cite for info how to create references. + +CITE_BIB_FILES = + +#--------------------------------------------------------------------------- +# Configuration options related to warning and progress messages +#--------------------------------------------------------------------------- + +# The QUIET tag can be used to turn on/off the messages that are generated to +# standard output by doxygen. If QUIET is set to YES this implies that the +# messages are off. +# The default value is: NO. + +QUIET = NO + +# The WARNINGS tag can be used to turn on/off the warning messages that are +# generated to standard error (stderr) by doxygen. If WARNINGS is set to YES +# this implies that the warnings are on. +# +# Tip: Turn warnings on while writing the documentation. +# The default value is: YES. + +WARNINGS = YES + +# If the WARN_IF_UNDOCUMENTED tag is set to YES then doxygen will generate +# warnings for undocumented members. If EXTRACT_ALL is set to YES then this flag +# will automatically be disabled. +# The default value is: YES. + +WARN_IF_UNDOCUMENTED = NO + +# If the WARN_IF_DOC_ERROR tag is set to YES, doxygen will generate warnings for +# potential errors in the documentation, such as not documenting some parameters +# in a documented function, or documenting parameters that don't exist or using +# markup commands wrongly. +# The default value is: YES. + +WARN_IF_DOC_ERROR = YES + +# This WARN_NO_PARAMDOC option can be enabled to get warnings for functions that +# are documented, but have no documentation for their parameters or return +# value. If set to NO, doxygen will only warn about wrong or incomplete +# parameter documentation, but not about the absence of documentation. +# The default value is: NO. + +WARN_NO_PARAMDOC = NO + +# The WARN_FORMAT tag determines the format of the warning messages that doxygen +# can produce. The string should contain the $file, $line, and $text tags, which +# will be replaced by the file and line number from which the warning originated +# and the warning text. Optionally the format may contain $version, which will +# be replaced by the version of the file (if it could be obtained via +# FILE_VERSION_FILTER) +# The default value is: $file:$line: $text. + +WARN_FORMAT = "$file:$line: $text" + +# The WARN_LOGFILE tag can be used to specify a file to which warning and error +# messages should be written. If left blank the output is written to standard +# error (stderr). + +WARN_LOGFILE = doxygen.log + +#--------------------------------------------------------------------------- +# Configuration options related to the input files +#--------------------------------------------------------------------------- + +# The INPUT tag is used to specify the files and/or directories that contain +# documented source files. You may enter file names like myfile.cpp or +# directories like /usr/src/myproject. Separate the files or directories with +# spaces. +# Note: If this tag is empty the current directory is searched. + +INPUT = + +# This tag can be used to specify the character encoding of the source files +# that doxygen parses. Internally doxygen uses the UTF-8 encoding. Doxygen uses +# libiconv (or the iconv built into libc) for the transcoding. See the libiconv +# documentation (see: http://www.gnu.org/software/libiconv) for the list of +# possible encodings. +# The default value is: UTF-8. + +INPUT_ENCODING = UTF-8 + +# If the value of the INPUT tag contains directories, you can use the +# FILE_PATTERNS tag to specify one or more wildcard patterns (like *.cpp and +# *.h) to filter out the source-files in the directories. If left blank the +# following patterns are tested:*.c, *.cc, *.cxx, *.cpp, *.c++, *.java, *.ii, +# *.ixx, *.ipp, *.i++, *.inl, *.idl, *.ddl, *.odl, *.h, *.hh, *.hxx, *.hpp, +# *.h++, *.cs, *.d, *.php, *.php4, *.php5, *.phtml, *.inc, *.m, *.markdown, +# *.md, *.mm, *.dox, *.py, *.f90, *.f, *.for, *.tcl, *.vhd, *.vhdl, *.ucf, +# *.qsf, *.as and *.js. + +FILE_PATTERNS = + +# The RECURSIVE tag can be used to specify whether or not subdirectories should +# be searched for input files as well. +# The default value is: NO. + +RECURSIVE = YES + +# The EXCLUDE tag can be used to specify files and/or directories that should be +# excluded from the INPUT source files. This way you can easily exclude a +# subdirectory from a directory tree whose root is specified with the INPUT tag. +# +# Note that relative paths are relative to the directory from which doxygen is +# run. + +EXCLUDE = integration-test/get-pip.py + +# The EXCLUDE_SYMLINKS tag can be used to select whether or not files or +# directories that are symbolic links (a Unix file system feature) are excluded +# from the input. +# The default value is: NO. + +EXCLUDE_SYMLINKS = NO + +# If the value of the INPUT tag contains directories, you can use the +# EXCLUDE_PATTERNS tag to specify one or more wildcard patterns to exclude +# certain files from those directories. +# +# Note that the wildcards are matched against the file with absolute path, so to +# exclude all test directories for example use the pattern */test/* + +EXCLUDE_PATTERNS = *.cc + +# The EXCLUDE_SYMBOLS tag can be used to specify one or more symbol names +# (namespaces, classes, functions, etc.) that should be excluded from the +# output. The symbol name can be a fully qualified name, a word, or if the +# wildcard * is used, a substring. Examples: ANamespace, AClass, +# AClass::ANamespace, ANamespace::*Test +# +# Note that the wildcards are matched against the file with absolute path, so to +# exclude all test directories use the pattern */test/* + +EXCLUDE_SYMBOLS = + +# The EXAMPLE_PATH tag can be used to specify one or more files or directories +# that contain example code fragments that are included (see the \include +# command). + +EXAMPLE_PATH = + +# If the value of the EXAMPLE_PATH tag contains directories, you can use the +# EXAMPLE_PATTERNS tag to specify one or more wildcard pattern (like *.cpp and +# *.h) to filter out the source-files in the directories. If left blank all +# files are included. + +EXAMPLE_PATTERNS = + +# If the EXAMPLE_RECURSIVE tag is set to YES then subdirectories will be +# searched for input files to be used with the \include or \dontinclude commands +# irrespective of the value of the RECURSIVE tag. +# The default value is: NO. + +EXAMPLE_RECURSIVE = NO + +# The IMAGE_PATH tag can be used to specify one or more files or directories +# that contain images that are to be included in the documentation (see the +# \image command). + +IMAGE_PATH = + +# The INPUT_FILTER tag can be used to specify a program that doxygen should +# invoke to filter for each input file. Doxygen will invoke the filter program +# by executing (via popen()) the command: +# +# +# +# where is the value of the INPUT_FILTER tag, and is the +# name of an input file. Doxygen will then use the output that the filter +# program writes to standard output. If FILTER_PATTERNS is specified, this tag +# will be ignored. +# +# Note that the filter must not add or remove lines; it is applied before the +# code is scanned, but not when the output code is generated. If lines are added +# or removed, the anchors will not be placed correctly. + +INPUT_FILTER = + +# The FILTER_PATTERNS tag can be used to specify filters on a per file pattern +# basis. Doxygen will compare the file name with each pattern and apply the +# filter if there is a match. The filters are a list of the form: pattern=filter +# (like *.cpp=my_cpp_filter). See INPUT_FILTER for further information on how +# filters are used. If the FILTER_PATTERNS tag is empty or if none of the +# patterns match the file name, INPUT_FILTER is applied. + +FILTER_PATTERNS = + +# If the FILTER_SOURCE_FILES tag is set to YES, the input filter (if set using +# INPUT_FILTER) will also be used to filter the input files that are used for +# producing the source files to browse (i.e. when SOURCE_BROWSER is set to YES). +# The default value is: NO. + +FILTER_SOURCE_FILES = NO + +# The FILTER_SOURCE_PATTERNS tag can be used to specify source filters per file +# pattern. A pattern will override the setting for FILTER_PATTERN (if any) and +# it is also possible to disable source filtering for a specific pattern using +# *.ext= (so without naming a filter). +# This tag requires that the tag FILTER_SOURCE_FILES is set to YES. + +FILTER_SOURCE_PATTERNS = + +# If the USE_MDFILE_AS_MAINPAGE tag refers to the name of a markdown file that +# is part of the input, its contents will be placed on the main page +# (index.html). This can be useful if you have a project on for instance GitHub +# and want to reuse the introduction page also for the doxygen output. + +USE_MDFILE_AS_MAINPAGE = + +#--------------------------------------------------------------------------- +# Configuration options related to source browsing +#--------------------------------------------------------------------------- + +# If the SOURCE_BROWSER tag is set to YES then a list of source files will be +# generated. Documented entities will be cross-referenced with these sources. +# +# Note: To get rid of all source code in the generated output, make sure that +# also VERBATIM_HEADERS is set to NO. +# The default value is: NO. + +SOURCE_BROWSER = YES + +# Setting the INLINE_SOURCES tag to YES will include the body of functions, +# classes and enums directly into the documentation. +# The default value is: NO. + +INLINE_SOURCES = NO + +# Setting the STRIP_CODE_COMMENTS tag to YES will instruct doxygen to hide any +# special comment blocks from generated source code fragments. Normal C, C++ and +# Fortran comments will always remain visible. +# The default value is: YES. + +STRIP_CODE_COMMENTS = YES + +# If the REFERENCED_BY_RELATION tag is set to YES then for each documented +# function all documented functions referencing it will be listed. +# The default value is: NO. + +REFERENCED_BY_RELATION = YES + +# If the REFERENCES_RELATION tag is set to YES then for each documented function +# all documented entities called/used by that function will be listed. +# The default value is: NO. + +REFERENCES_RELATION = YES + +# If the REFERENCES_LINK_SOURCE tag is set to YES and SOURCE_BROWSER tag is set +# to YES then the hyperlinks from functions in REFERENCES_RELATION and +# REFERENCED_BY_RELATION lists will link to the source code. Otherwise they will +# link to the documentation. +# The default value is: YES. + +REFERENCES_LINK_SOURCE = YES + +# If SOURCE_TOOLTIPS is enabled (the default) then hovering a hyperlink in the +# source code will show a tooltip with additional information such as prototype, +# brief description and links to the definition and documentation. Since this +# will make the HTML file larger and loading of large files a bit slower, you +# can opt to disable this feature. +# The default value is: YES. +# This tag requires that the tag SOURCE_BROWSER is set to YES. + +SOURCE_TOOLTIPS = YES + +# If the USE_HTAGS tag is set to YES then the references to source code will +# point to the HTML generated by the htags(1) tool instead of doxygen built-in +# source browser. The htags tool is part of GNU's global source tagging system +# (see http://www.gnu.org/software/global/global.html). You will need version +# 4.8.6 or higher. +# +# To use it do the following: +# - Install the latest version of global +# - Enable SOURCE_BROWSER and USE_HTAGS in the config file +# - Make sure the INPUT points to the root of the source tree +# - Run doxygen as normal +# +# Doxygen will invoke htags (and that will in turn invoke gtags), so these +# tools must be available from the command line (i.e. in the search path). +# +# The result: instead of the source browser generated by doxygen, the links to +# source code will now point to the output of htags. +# The default value is: NO. +# This tag requires that the tag SOURCE_BROWSER is set to YES. + +USE_HTAGS = NO + +# If the VERBATIM_HEADERS tag is set the YES then doxygen will generate a +# verbatim copy of the header file for each class for which an include is +# specified. Set to NO to disable this. +# See also: Section \class. +# The default value is: YES. + +VERBATIM_HEADERS = YES + +#--------------------------------------------------------------------------- +# Configuration options related to the alphabetical class index +#--------------------------------------------------------------------------- + +# If the ALPHABETICAL_INDEX tag is set to YES, an alphabetical index of all +# compounds will be generated. Enable this if the project contains a lot of +# classes, structs, unions or interfaces. +# The default value is: YES. + +ALPHABETICAL_INDEX = YES + +# The COLS_IN_ALPHA_INDEX tag can be used to specify the number of columns in +# which the alphabetical index list will be split. +# Minimum value: 1, maximum value: 20, default value: 5. +# This tag requires that the tag ALPHABETICAL_INDEX is set to YES. + +COLS_IN_ALPHA_INDEX = 5 + +# In case all classes in a project start with a common prefix, all classes will +# be put under the same header in the alphabetical index. The IGNORE_PREFIX tag +# can be used to specify a prefix (or a list of prefixes) that should be ignored +# while generating the index headers. +# This tag requires that the tag ALPHABETICAL_INDEX is set to YES. + +IGNORE_PREFIX = + +#--------------------------------------------------------------------------- +# Configuration options related to the HTML output +#--------------------------------------------------------------------------- + +# If the GENERATE_HTML tag is set to YES, doxygen will generate HTML output +# The default value is: YES. + +GENERATE_HTML = YES + +# The HTML_OUTPUT tag is used to specify where the HTML docs will be put. If a +# relative path is entered the value of OUTPUT_DIRECTORY will be put in front of +# it. +# The default directory is: html. +# This tag requires that the tag GENERATE_HTML is set to YES. + +HTML_OUTPUT = html + +# The HTML_FILE_EXTENSION tag can be used to specify the file extension for each +# generated HTML page (for example: .htm, .php, .asp). +# The default value is: .html. +# This tag requires that the tag GENERATE_HTML is set to YES. + +HTML_FILE_EXTENSION = .html + +# The HTML_HEADER tag can be used to specify a user-defined HTML header file for +# each generated HTML page. If the tag is left blank doxygen will generate a +# standard header. +# +# To get valid HTML the header file that includes any scripts and style sheets +# that doxygen needs, which is dependent on the configuration options used (e.g. +# the setting GENERATE_TREEVIEW). It is highly recommended to start with a +# default header using +# doxygen -w html new_header.html new_footer.html new_stylesheet.css +# YourConfigFile +# and then modify the file new_header.html. See also section "Doxygen usage" +# for information on how to generate the default header that doxygen normally +# uses. +# Note: The header is subject to change so you typically have to regenerate the +# default header when upgrading to a newer version of doxygen. For a description +# of the possible markers and block names see the documentation. +# This tag requires that the tag GENERATE_HTML is set to YES. + +HTML_HEADER = + +# The HTML_FOOTER tag can be used to specify a user-defined HTML footer for each +# generated HTML page. If the tag is left blank doxygen will generate a standard +# footer. See HTML_HEADER for more information on how to generate a default +# footer and what special commands can be used inside the footer. See also +# section "Doxygen usage" for information on how to generate the default footer +# that doxygen normally uses. +# This tag requires that the tag GENERATE_HTML is set to YES. + +HTML_FOOTER = + +# The HTML_STYLESHEET tag can be used to specify a user-defined cascading style +# sheet that is used by each HTML page. It can be used to fine-tune the look of +# the HTML output. If left blank doxygen will generate a default style sheet. +# See also section "Doxygen usage" for information on how to generate the style +# sheet that doxygen normally uses. +# Note: It is recommended to use HTML_EXTRA_STYLESHEET instead of this tag, as +# it is more robust and this tag (HTML_STYLESHEET) will in the future become +# obsolete. +# This tag requires that the tag GENERATE_HTML is set to YES. + +HTML_STYLESHEET = + +# The HTML_EXTRA_STYLESHEET tag can be used to specify additional user-defined +# cascading style sheets that are included after the standard style sheets +# created by doxygen. Using this option one can overrule certain style aspects. +# This is preferred over using HTML_STYLESHEET since it does not replace the +# standard style sheet and is therefore more robust against future updates. +# Doxygen will copy the style sheet files to the output directory. +# Note: The order of the extra style sheet files is of importance (e.g. the last +# style sheet in the list overrules the setting of the previous ones in the +# list). For an example see the documentation. +# This tag requires that the tag GENERATE_HTML is set to YES. + +HTML_EXTRA_STYLESHEET = + +# The HTML_EXTRA_FILES tag can be used to specify one or more extra images or +# other source files which should be copied to the HTML output directory. Note +# that these files will be copied to the base HTML output directory. Use the +# $relpath^ marker in the HTML_HEADER and/or HTML_FOOTER files to load these +# files. In the HTML_STYLESHEET file, use the file name only. Also note that the +# files will be copied as-is; there are no commands or markers available. +# This tag requires that the tag GENERATE_HTML is set to YES. + +HTML_EXTRA_FILES = + +# The HTML_COLORSTYLE_HUE tag controls the color of the HTML output. Doxygen +# will adjust the colors in the style sheet and background images according to +# this color. Hue is specified as an angle on a colorwheel, see +# http://en.wikipedia.org/wiki/Hue for more information. For instance the value +# 0 represents red, 60 is yellow, 120 is green, 180 is cyan, 240 is blue, 300 +# purple, and 360 is red again. +# Minimum value: 0, maximum value: 359, default value: 220. +# This tag requires that the tag GENERATE_HTML is set to YES. + +HTML_COLORSTYLE_HUE = 220 + +# The HTML_COLORSTYLE_SAT tag controls the purity (or saturation) of the colors +# in the HTML output. For a value of 0 the output will use grayscales only. A +# value of 255 will produce the most vivid colors. +# Minimum value: 0, maximum value: 255, default value: 100. +# This tag requires that the tag GENERATE_HTML is set to YES. + +HTML_COLORSTYLE_SAT = 100 + +# The HTML_COLORSTYLE_GAMMA tag controls the gamma correction applied to the +# luminance component of the colors in the HTML output. Values below 100 +# gradually make the output lighter, whereas values above 100 make the output +# darker. The value divided by 100 is the actual gamma applied, so 80 represents +# a gamma of 0.8, The value 220 represents a gamma of 2.2, and 100 does not +# change the gamma. +# Minimum value: 40, maximum value: 240, default value: 80. +# This tag requires that the tag GENERATE_HTML is set to YES. + +HTML_COLORSTYLE_GAMMA = 80 + +# If the HTML_TIMESTAMP tag is set to YES then the footer of each generated HTML +# page will contain the date and time when the page was generated. Setting this +# to NO can help when comparing the output of multiple runs. +# The default value is: YES. +# This tag requires that the tag GENERATE_HTML is set to YES. + +HTML_TIMESTAMP = YES + +# If the HTML_DYNAMIC_SECTIONS tag is set to YES then the generated HTML +# documentation will contain sections that can be hidden and shown after the +# page has loaded. +# The default value is: NO. +# This tag requires that the tag GENERATE_HTML is set to YES. + +HTML_DYNAMIC_SECTIONS = NO + +# With HTML_INDEX_NUM_ENTRIES one can control the preferred number of entries +# shown in the various tree structured indices initially; the user can expand +# and collapse entries dynamically later on. Doxygen will expand the tree to +# such a level that at most the specified number of entries are visible (unless +# a fully collapsed tree already exceeds this amount). So setting the number of +# entries 1 will produce a full collapsed tree by default. 0 is a special value +# representing an infinite number of entries and will result in a full expanded +# tree by default. +# Minimum value: 0, maximum value: 9999, default value: 100. +# This tag requires that the tag GENERATE_HTML is set to YES. + +HTML_INDEX_NUM_ENTRIES = 100 + +# If the GENERATE_DOCSET tag is set to YES, additional index files will be +# generated that can be used as input for Apple's Xcode 3 integrated development +# environment (see: http://developer.apple.com/tools/xcode/), introduced with +# OSX 10.5 (Leopard). To create a documentation set, doxygen will generate a +# Makefile in the HTML output directory. Running make will produce the docset in +# that directory and running make install will install the docset in +# ~/Library/Developer/Shared/Documentation/DocSets so that Xcode will find it at +# startup. See http://developer.apple.com/tools/creatingdocsetswithdoxygen.html +# for more information. +# The default value is: NO. +# This tag requires that the tag GENERATE_HTML is set to YES. + +GENERATE_DOCSET = NO + +# This tag determines the name of the docset feed. A documentation feed provides +# an umbrella under which multiple documentation sets from a single provider +# (such as a company or product suite) can be grouped. +# The default value is: Doxygen generated docs. +# This tag requires that the tag GENERATE_DOCSET is set to YES. + +DOCSET_FEEDNAME = "Doxygen generated docs" + +# This tag specifies a string that should uniquely identify the documentation +# set bundle. This should be a reverse domain-name style string, e.g. +# com.mycompany.MyDocSet. Doxygen will append .docset to the name. +# The default value is: org.doxygen.Project. +# This tag requires that the tag GENERATE_DOCSET is set to YES. + +DOCSET_BUNDLE_ID = org.doxygen.Project + +# The DOCSET_PUBLISHER_ID tag specifies a string that should uniquely identify +# the documentation publisher. This should be a reverse domain-name style +# string, e.g. com.mycompany.MyDocSet.documentation. +# The default value is: org.doxygen.Publisher. +# This tag requires that the tag GENERATE_DOCSET is set to YES. + +DOCSET_PUBLISHER_ID = org.doxygen.Publisher + +# The DOCSET_PUBLISHER_NAME tag identifies the documentation publisher. +# The default value is: Publisher. +# This tag requires that the tag GENERATE_DOCSET is set to YES. + +DOCSET_PUBLISHER_NAME = Publisher + +# If the GENERATE_HTMLHELP tag is set to YES then doxygen generates three +# additional HTML index files: index.hhp, index.hhc, and index.hhk. The +# index.hhp is a project file that can be read by Microsoft's HTML Help Workshop +# (see: http://www.microsoft.com/en-us/download/details.aspx?id=21138) on +# Windows. +# +# The HTML Help Workshop contains a compiler that can convert all HTML output +# generated by doxygen into a single compiled HTML file (.chm). Compiled HTML +# files are now used as the Windows 98 help format, and will replace the old +# Windows help format (.hlp) on all Windows platforms in the future. Compressed +# HTML files also contain an index, a table of contents, and you can search for +# words in the documentation. The HTML workshop also contains a viewer for +# compressed HTML files. +# The default value is: NO. +# This tag requires that the tag GENERATE_HTML is set to YES. + +GENERATE_HTMLHELP = NO + +# The CHM_FILE tag can be used to specify the file name of the resulting .chm +# file. You can add a path in front of the file if the result should not be +# written to the html output directory. +# This tag requires that the tag GENERATE_HTMLHELP is set to YES. + +CHM_FILE = + +# The HHC_LOCATION tag can be used to specify the location (absolute path +# including file name) of the HTML help compiler (hhc.exe). If non-empty, +# doxygen will try to run the HTML help compiler on the generated index.hhp. +# The file has to be specified with full path. +# This tag requires that the tag GENERATE_HTMLHELP is set to YES. + +HHC_LOCATION = + +# The GENERATE_CHI flag controls if a separate .chi index file is generated +# (YES) or that it should be included in the master .chm file (NO). +# The default value is: NO. +# This tag requires that the tag GENERATE_HTMLHELP is set to YES. + +GENERATE_CHI = NO + +# The CHM_INDEX_ENCODING is used to encode HtmlHelp index (hhk), content (hhc) +# and project file content. +# This tag requires that the tag GENERATE_HTMLHELP is set to YES. + +CHM_INDEX_ENCODING = + +# The BINARY_TOC flag controls whether a binary table of contents is generated +# (YES) or a normal table of contents (NO) in the .chm file. Furthermore it +# enables the Previous and Next buttons. +# The default value is: NO. +# This tag requires that the tag GENERATE_HTMLHELP is set to YES. + +BINARY_TOC = NO + +# The TOC_EXPAND flag can be set to YES to add extra items for group members to +# the table of contents of the HTML help documentation and to the tree view. +# The default value is: NO. +# This tag requires that the tag GENERATE_HTMLHELP is set to YES. + +TOC_EXPAND = NO + +# If the GENERATE_QHP tag is set to YES and both QHP_NAMESPACE and +# QHP_VIRTUAL_FOLDER are set, an additional index file will be generated that +# can be used as input for Qt's qhelpgenerator to generate a Qt Compressed Help +# (.qch) of the generated HTML documentation. +# The default value is: NO. +# This tag requires that the tag GENERATE_HTML is set to YES. + +GENERATE_QHP = NO + +# If the QHG_LOCATION tag is specified, the QCH_FILE tag can be used to specify +# the file name of the resulting .qch file. The path specified is relative to +# the HTML output folder. +# This tag requires that the tag GENERATE_QHP is set to YES. + +QCH_FILE = + +# The QHP_NAMESPACE tag specifies the namespace to use when generating Qt Help +# Project output. For more information please see Qt Help Project / Namespace +# (see: http://qt-project.org/doc/qt-4.8/qthelpproject.html#namespace). +# The default value is: org.doxygen.Project. +# This tag requires that the tag GENERATE_QHP is set to YES. + +QHP_NAMESPACE = org.doxygen.Project + +# The QHP_VIRTUAL_FOLDER tag specifies the namespace to use when generating Qt +# Help Project output. For more information please see Qt Help Project / Virtual +# Folders (see: http://qt-project.org/doc/qt-4.8/qthelpproject.html#virtual- +# folders). +# The default value is: doc. +# This tag requires that the tag GENERATE_QHP is set to YES. + +QHP_VIRTUAL_FOLDER = doc + +# If the QHP_CUST_FILTER_NAME tag is set, it specifies the name of a custom +# filter to add. For more information please see Qt Help Project / Custom +# Filters (see: http://qt-project.org/doc/qt-4.8/qthelpproject.html#custom- +# filters). +# This tag requires that the tag GENERATE_QHP is set to YES. + +QHP_CUST_FILTER_NAME = + +# The QHP_CUST_FILTER_ATTRS tag specifies the list of the attributes of the +# custom filter to add. For more information please see Qt Help Project / Custom +# Filters (see: http://qt-project.org/doc/qt-4.8/qthelpproject.html#custom- +# filters). +# This tag requires that the tag GENERATE_QHP is set to YES. + +QHP_CUST_FILTER_ATTRS = + +# The QHP_SECT_FILTER_ATTRS tag specifies the list of the attributes this +# project's filter section matches. Qt Help Project / Filter Attributes (see: +# http://qt-project.org/doc/qt-4.8/qthelpproject.html#filter-attributes). +# This tag requires that the tag GENERATE_QHP is set to YES. + +QHP_SECT_FILTER_ATTRS = + +# The QHG_LOCATION tag can be used to specify the location of Qt's +# qhelpgenerator. If non-empty doxygen will try to run qhelpgenerator on the +# generated .qhp file. +# This tag requires that the tag GENERATE_QHP is set to YES. + +QHG_LOCATION = + +# If the GENERATE_ECLIPSEHELP tag is set to YES, additional index files will be +# generated, together with the HTML files, they form an Eclipse help plugin. To +# install this plugin and make it available under the help contents menu in +# Eclipse, the contents of the directory containing the HTML and XML files needs +# to be copied into the plugins directory of eclipse. The name of the directory +# within the plugins directory should be the same as the ECLIPSE_DOC_ID value. +# After copying Eclipse needs to be restarted before the help appears. +# The default value is: NO. +# This tag requires that the tag GENERATE_HTML is set to YES. + +GENERATE_ECLIPSEHELP = NO + +# A unique identifier for the Eclipse help plugin. When installing the plugin +# the directory name containing the HTML and XML files should also have this +# name. Each documentation set should have its own identifier. +# The default value is: org.doxygen.Project. +# This tag requires that the tag GENERATE_ECLIPSEHELP is set to YES. + +ECLIPSE_DOC_ID = org.doxygen.Project + +# If you want full control over the layout of the generated HTML pages it might +# be necessary to disable the index and replace it with your own. The +# DISABLE_INDEX tag can be used to turn on/off the condensed index (tabs) at top +# of each HTML page. A value of NO enables the index and the value YES disables +# it. Since the tabs in the index contain the same information as the navigation +# tree, you can set this option to YES if you also set GENERATE_TREEVIEW to YES. +# The default value is: NO. +# This tag requires that the tag GENERATE_HTML is set to YES. + +DISABLE_INDEX = NO + +# The GENERATE_TREEVIEW tag is used to specify whether a tree-like index +# structure should be generated to display hierarchical information. If the tag +# value is set to YES, a side panel will be generated containing a tree-like +# index structure (just like the one that is generated for HTML Help). For this +# to work a browser that supports JavaScript, DHTML, CSS and frames is required +# (i.e. any modern browser). Windows users are probably better off using the +# HTML help feature. Via custom style sheets (see HTML_EXTRA_STYLESHEET) one can +# further fine-tune the look of the index. As an example, the default style +# sheet generated by doxygen has an example that shows how to put an image at +# the root of the tree instead of the PROJECT_NAME. Since the tree basically has +# the same information as the tab index, you could consider setting +# DISABLE_INDEX to YES when enabling this option. +# The default value is: NO. +# This tag requires that the tag GENERATE_HTML is set to YES. + +GENERATE_TREEVIEW = NO + +# The ENUM_VALUES_PER_LINE tag can be used to set the number of enum values that +# doxygen will group on one line in the generated HTML documentation. +# +# Note that a value of 0 will completely suppress the enum values from appearing +# in the overview section. +# Minimum value: 0, maximum value: 20, default value: 4. +# This tag requires that the tag GENERATE_HTML is set to YES. + +ENUM_VALUES_PER_LINE = 4 + +# If the treeview is enabled (see GENERATE_TREEVIEW) then this tag can be used +# to set the initial width (in pixels) of the frame in which the tree is shown. +# Minimum value: 0, maximum value: 1500, default value: 250. +# This tag requires that the tag GENERATE_HTML is set to YES. + +TREEVIEW_WIDTH = 250 + +# If the EXT_LINKS_IN_WINDOW option is set to YES, doxygen will open links to +# external symbols imported via tag files in a separate window. +# The default value is: NO. +# This tag requires that the tag GENERATE_HTML is set to YES. + +EXT_LINKS_IN_WINDOW = NO + +# Use this tag to change the font size of LaTeX formulas included as images in +# the HTML documentation. When you change the font size after a successful +# doxygen run you need to manually remove any form_*.png images from the HTML +# output directory to force them to be regenerated. +# Minimum value: 8, maximum value: 50, default value: 10. +# This tag requires that the tag GENERATE_HTML is set to YES. + +FORMULA_FONTSIZE = 10 + +# Use the FORMULA_TRANPARENT tag to determine whether or not the images +# generated for formulas are transparent PNGs. Transparent PNGs are not +# supported properly for IE 6.0, but are supported on all modern browsers. +# +# Note that when changing this option you need to delete any form_*.png files in +# the HTML output directory before the changes have effect. +# The default value is: YES. +# This tag requires that the tag GENERATE_HTML is set to YES. + +FORMULA_TRANSPARENT = YES + +# Enable the USE_MATHJAX option to render LaTeX formulas using MathJax (see +# http://www.mathjax.org) which uses client side Javascript for the rendering +# instead of using pre-rendered bitmaps. Use this if you do not have LaTeX +# installed or if you want to formulas look prettier in the HTML output. When +# enabled you may also need to install MathJax separately and configure the path +# to it using the MATHJAX_RELPATH option. +# The default value is: NO. +# This tag requires that the tag GENERATE_HTML is set to YES. + +USE_MATHJAX = NO + +# When MathJax is enabled you can set the default output format to be used for +# the MathJax output. See the MathJax site (see: +# http://docs.mathjax.org/en/latest/output.html) for more details. +# Possible values are: HTML-CSS (which is slower, but has the best +# compatibility), NativeMML (i.e. MathML) and SVG. +# The default value is: HTML-CSS. +# This tag requires that the tag USE_MATHJAX is set to YES. + +MATHJAX_FORMAT = HTML-CSS + +# When MathJax is enabled you need to specify the location relative to the HTML +# output directory using the MATHJAX_RELPATH option. The destination directory +# should contain the MathJax.js script. For instance, if the mathjax directory +# is located at the same level as the HTML output directory, then +# MATHJAX_RELPATH should be ../mathjax. The default value points to the MathJax +# Content Delivery Network so you can quickly see the result without installing +# MathJax. However, it is strongly recommended to install a local copy of +# MathJax from http://www.mathjax.org before deployment. +# The default value is: http://cdn.mathjax.org/mathjax/latest. +# This tag requires that the tag USE_MATHJAX is set to YES. + +MATHJAX_RELPATH = http://cdn.mathjax.org/mathjax/latest + +# The MATHJAX_EXTENSIONS tag can be used to specify one or more MathJax +# extension names that should be enabled during MathJax rendering. For example +# MATHJAX_EXTENSIONS = TeX/AMSmath TeX/AMSsymbols +# This tag requires that the tag USE_MATHJAX is set to YES. + +MATHJAX_EXTENSIONS = + +# The MATHJAX_CODEFILE tag can be used to specify a file with javascript pieces +# of code that will be used on startup of the MathJax code. See the MathJax site +# (see: http://docs.mathjax.org/en/latest/output.html) for more details. For an +# example see the documentation. +# This tag requires that the tag USE_MATHJAX is set to YES. + +MATHJAX_CODEFILE = + +# When the SEARCHENGINE tag is enabled doxygen will generate a search box for +# the HTML output. The underlying search engine uses javascript and DHTML and +# should work on any modern browser. Note that when using HTML help +# (GENERATE_HTMLHELP), Qt help (GENERATE_QHP), or docsets (GENERATE_DOCSET) +# there is already a search function so this one should typically be disabled. +# For large projects the javascript based search engine can be slow, then +# enabling SERVER_BASED_SEARCH may provide a better solution. It is possible to +# search using the keyboard; to jump to the search box use + S +# (what the is depends on the OS and browser, but it is typically +# , /