Merge RGLab:devel into k-motwani:devel-phylo#6

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k-motwani wants to merge 90 commits intok-motwani:devel-phylofrom RGLab:devel

+3,338-3,721

Commits on Jul 12, 2021

rm cytoctx
mikejiang
committed

Commits on Jul 13, 2021

convert src/cytoframeAPI.cpp
mikejiang
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port pairVectorRcppWrap
mikejiang
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port keyword apis
mikejiang
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port pdata api for cytoframe
mikejiang
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deal with int64 casting
mikejiang
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get rid of unsigned int
mikejiang
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fix kw_to_sexp
mikejiang
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skip rownames tests
mikejiang
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cpp11 doesn't allow implitcit type convert
mikejiang
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set dimnames properly for matrix
mikejiang
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fix setkeywords
mikejiang
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port h5_set_error_handler
mikejiang
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Commits on Jul 14, 2021

explicit coerse to str for keyword setter
mikejiang
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fix frm_compensate
mikejiang
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add rmatrix_to_arma/arma_to_rmatrix wrappers
mikejiang
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port cs Rcpp APIs
mikejiang
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mv rcpp sugar indexing back to R
mikejiang
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port pdata apis
mikejiang
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fix fcs_to_cytoset
mikejiang
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fix set_pheno_data
mikejiang
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fix cs_get_cytoframe
mikejiang
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gs APIs
mikejiang
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fix cs keyword setter
mikejiang
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Commits on Jul 15, 2021

gh APIs
mikejiang
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fix get pop stats
mikejiang
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set_transformations
mikejiang
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cpp_getGate
mikejiang
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boolFilter_R_to_C
mikejiang
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newGate
mikejiang
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complete gh api
mikejiang
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cpp_getSingleCellExpression
mikejiang
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getPopCounts_cpp
mikejiang
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misc
mikejiang
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fix subset.cytoset
mikejiang
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fix tests
mikejiang
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Commits on Jul 16, 2021

deal with cpp11 bug
mikejiang
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fix cpp_getPopStats
mikejiang
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fix boolFilter_R_to_C
mikejiang
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fix convert_transformer
mikejiang
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fix cluster gate
mikejiang
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rm rcpp debris
mikejiang
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deal with empty cs
mikejiang
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Commits on Jul 20, 2021

make cytoml compile
mikejiang
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Commits on Jul 24, 2021

ensure types are double before passing to cpp11
mikejiang
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fix rectangleGate test
mikejiang
committed

Commits on Jul 26, 2021

cleanup
mikejiang
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Commits on Aug 2, 2021

update emails
mikejiang
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fix bioc test error
mikejiang
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bump
mikejiang
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port hashmap in getPopStats.cpp from master
mikejiang
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merge master
mikejiang
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Commits on Aug 3, 2021

rm direct gpl deps
mikejiang
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Commits on Oct 21, 2022

update to AGPL-3.0
gfinak
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Commits on Oct 22, 2022

Merge branch 'master' of github.com:OzetteTech/flowWorkspace
mikejiang
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merge
mikejiang
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update cp11 code
mikejiang
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update cpp11 code
mikejiang
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bump
mikejiang
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Commits on Oct 24, 2022

fix test error
mikejiang
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Commits on Nov 1, 2022

Commits on Dec 29, 2022

fixed mac seg fault
mikejiang
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Merge branch 'develop'
mikejiang
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bump
mikejiang
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Commits on Apr 25, 2023

Commits on Jun 14, 2023

Commits on Jun 20, 2023

Make stats arguments in gh_pop_get_stats() and gs_pop_get_count_fast() case insensitive. (#385 )
djhammill
authored

Commits on Jul 10, 2023

support multirange gate
mikejiang
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print
mikejiang
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Multirangegate (#387 )

mikejiang
and
mikejiang
authored
update test to Remove the new time gate to avoid breaking the existing test suite
mikejiang
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Merge branch 'devel' of github.com:RGLab/flowWorkspace into devel
mikejiang
committed

Commits on Aug 17, 2023

Pass additional load_cytoset_from_fcs() arguments through flowSet_to_cytoset() (#389 )
djhammill
authored

Commits on Aug 20, 2023

Hotfix/fix gs get singlecell expression by gate (#391 )

mikejiang
and
mikejiang
authored

Commits on Oct 24, 2023

Commits on Dec 5, 2023

update transformerList constructor according to the latest scales package
mikejiang
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Merge branch 'devel' into hotfix/update-according-to-latest-scales-package
mikejiang
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bump
mikejiang
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Commits on Jan 13, 2024

use c++17 for std::filesystem
mikejiang
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bump
mikejiang
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Commits on Jan 15, 2024

skip code chunks that fails on mac due to
mikejiang
committed
bump
mikejiang
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Commits on Jan 17, 2024

Revert "skip code chunks that fails on mac due to"
mikejiang
committed

Commits on Jan 19, 2024

bump
mikejiang
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Commits on Mar 16, 2024

patch make file for windows
mikejiang
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bump
mikejiang
committed