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commit f96109a086832f1a960d3522b9ddb7ae6e5c77bb Author: nadiya <nadiya@debian> Date: Wed Mar 29 00:23:51 2017 -0400 add patch to fix quantile call to remove NA and NaNs --- debian/patches/01_fix_quantile_na_rm.patch | 20 ++++++++++++++++++++ debian/patches/series | 1 + 2 files changed, 21 insertions(+) diff --git a/debian/patches/01_fix_quantile_na_rm.patch b/debian/patches/01_fix_quantile_na_rm.patch new file mode 100644 index 0000000..30d2ba6 --- /dev/null +++ b/debian/patches/01_fix_quantile_na_rm.patch @@ -0,0 +1,20 @@ +Author: Nadiya Sitdykova +Description: change calcSampleStats such as any NA and Nan's are + removed before quantiles are computed +Last-Update: 2017-03-28 + +Index: mapdamage/mapdamage/Rscripts/stats/function.R +=================================================================== +--- mapdamage.orig/mapdamage/Rscripts/stats/function.R 2017-03-29 00:02:46.538470957 -0400 ++++ mapdamage/mapdamage/Rscripts/stats/function.R 2017-03-29 00:11:09.141025051 -0400 +@@ -595,8 +595,8 @@ + pos=da[,"Pos"], + mea=apply(X,1,mean), + med=apply(X,1,median), +- loCI=apply(X,1,quantile,c(0.025)), +- hiCI=apply(X,1,quantile,c(0.975)) ++ loCI=apply(X,1,quantile,c(0.025),na.rm=TRUE), ++ hiCI=apply(X,1,quantile,c(0.975),na.rm=TRUE) + )) + } + diff --git a/debian/patches/series b/debian/patches/series index 8ac87a5..f14293f 100644 --- a/debian/patches/series +++ b/debian/patches/series @@ -1 +1,2 @@ use_debian_packaged_seqtk.patch +01_fix_quantile_na_rm.patch -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/mapdamage.git _______________________________________________ debian-med-commit mailing list debian-med-commit@lists.alioth.debian.org http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit