R: Update CRAN and bioconductor packages

3 files changed, 1760 insertions, 1745 deletions

diff --git a/pkgs/development/r-modules/bioc-packages.nix b/pkgs/development/r-modules/bioc-packages.nix
index a849ec0c0262..a85290708fc5 100644
--- a/pkgs/development/r-modules/bioc-packages.nix
+++ b/pkgs/development/r-modules/bioc-packages.nix
@@ -370,7 +370,7 @@ in with self; {
   GoogleGenomics = derive2 { name="GoogleGenomics"; version="2.4.0"; sha256="0xcj10r85hxh5qy43cjb6ypd849b5wphhhv528simxq4glhgrhxp"; depends=[Biobase Biostrings GenomeInfoDb GenomicAlignments GenomicRanges httr IRanges rjson Rsamtools S4Vectors VariantAnnotation]; };
   GraphAT = derive2 { name="GraphAT"; version="1.54.0"; sha256="1xfd0i0j1fai58c15mc3lrg2jc4iwswyfpyg0ff5hnyhmgr3wnsa"; depends=[graph MCMCpack]; };
   GraphAlignment = derive2 { name="GraphAlignment"; version="1.46.0"; sha256="1qql33ikps9x0dkvc31sxvyf8w119ax7519v5bv35s3i5yxh16i6"; depends=[]; };
-  GraphPAC = derive2 { name="GraphPAC"; version="1.24.0"; sha256="0dwh3xshp74isq3rljlivks04mw4r0vgzg74qwyc2ar5b2j96bbg"; depends=[igraph iPAC RMallow TSP]; };
+  GraphPAC = derive2 { name="GraphPAC"; version="1.24.0"; sha256="0dwh3xshp74isq3rljlivks04mw4r0vgzg74qwyc2ar5b2j96bbg"; depends=[igraph iPAC TSP]; };
   GreyListChIP = derive2 { name="GreyListChIP"; version="1.14.0"; sha256="1hsjv4r88ldb7pgl5a3im8vdhmbiaj0rrn0clij7jfh5p5r81r1r"; depends=[BSgenome GenomeInfoDb GenomicAlignments GenomicRanges MASS Rsamtools rtracklayer SummarizedExperiment]; };
   Guitar = derive2 { name="Guitar"; version="1.20.1"; sha256="1d4j54jdnsi8gi6p0kk6zxkk6kzd1r1k77mw142xlvh8b6zrl3nq"; depends=[GenomicAlignments GenomicFeatures GenomicRanges ggplot2 IRanges Rsamtools rtracklayer]; };
   Gviz = derive2 { name="Gviz"; version="1.26.5"; sha256="1dpkcaar7qgzg3vgafvkplprhwmhzpb7ph009kr6ajm36hx4z81c"; depends=[AnnotationDbi Biobase BiocGenerics biomaRt Biostrings biovizBase BSgenome digest GenomeInfoDb GenomicAlignments GenomicFeatures GenomicRanges IRanges lattice latticeExtra matrixStats RColorBrewer Rsamtools rtracklayer S4Vectors XVector]; };
@@ -457,7 +457,7 @@ in with self; {
   M3C = derive2 { name="M3C"; version="1.4.1"; sha256="0l9063bn0sfcq5qxghaj8f98x0pg91fwsd8l64ga8d7pnlm8i5fm"; depends=[cluster dendextend doParallel doSNOW foreach ggplot2 Matrix matrixcalc NMF RColorBrewer Rtsne sigclust survival]; };
   M3D = derive2 { name="M3D"; version="1.16.0"; sha256="0a7xs3kqvyxswsa4zcdakij4rvpv1pr4fmplnvxyskhh2zps7xyl"; depends=[BiocGenerics BiSeq GenomicRanges IRanges Rcpp S4Vectors SummarizedExperiment]; };
   M3Drop = derive2 { name="M3Drop"; version="1.8.1"; sha256="0bzxv4lnmbz4d7y1c2w7i013rfjscnj1ndb05k9n1i4c9gsknqya"; depends=[bbmle gplots numDeriv RColorBrewer statmod]; };
-  MACPET = derive2 { name="MACPET"; version="1.2.0"; sha256="0799d3pr5b6g7xbi75pf693768nspdc73qay72naghyql6g91s96"; depends=[BH bigmemory BiocParallel Biostrings futile_logger GenomeInfoDb GenomicAlignments GenomicRanges GEOquery gtools InteractionSet intervals IRanges knitr plyr rbamtools Rbowtie Rcpp Rsamtools rtracklayer S4Vectors ShortRead]; };
+  MACPET = derive2 { name="MACPET"; version="1.2.0"; sha256="0799d3pr5b6g7xbi75pf693768nspdc73qay72naghyql6g91s96"; depends=[BH bigmemory BiocParallel Biostrings futile_logger GenomeInfoDb GenomicAlignments GenomicRanges GEOquery gtools InteractionSet intervals IRanges knitr plyr Rbowtie Rcpp Rsamtools rtracklayer S4Vectors ShortRead]; };
   MADSEQ = derive2 { name="MADSEQ"; version="1.8.0"; sha256="1b7d6niz8lhvd17xjl4hy1yyki049cg6wd3g8wp38bm3zs6dzfd1"; depends=[Biostrings BSgenome BSgenome_Hsapiens_UCSC_hg19 coda GenomeInfoDb GenomicAlignments GenomicRanges IRanges preprocessCore rjags Rsamtools rtracklayer S4Vectors SummarizedExperiment VariantAnnotation vcfR VGAM zlibbioc]; };
   MAGeCKFlute = derive2 { name="MAGeCKFlute"; version="1.2.3"; sha256="1d2lllsz2jdqma1ifdg7xj9fby85az7bifn0h0hj705m6dyla42z"; depends=[biomaRt bladderbatch clusterProfiler data_table DOSE ggExtra ggplot2 ggrepel ggsci gridExtra pathview pheatmap png sva]; };
   MAIT = derive2 { name="MAIT"; version="1.16.1"; sha256="0fg3cah81c4gzm3hw590h4grrja2qgfs8mrpkbifrgsclbybnp95"; depends=[agricolae CAMERA caret class e1071 gplots MASS pls plsgenomics Rcpp xcms]; };
@@ -479,7 +479,7 @@ in with self; {
   MIGSA = derive2 { name="MIGSA"; version="1.6.0"; sha256="19gfb98qmb8wbi343lw92sf7d29xliyzb3wz095pd2npsjr69qkl"; depends=[AnnotationDbi Biobase BiocGenerics BiocParallel data_table edgeR futile_logger ggdendro ggplot2 GO_db GOstats graph GSEABase ismev limma matrixStats org_Hs_eg_db RBGL reshape2 Rgraphviz RJSONIO vegan]; };
   MIMOSA = derive2 { name="MIMOSA"; version="1.20.1"; sha256="0vj7z95pjq62glg1akipydbybxsxc69yjpqrffpc33kqhf46nhfb"; depends=[Biobase coda data_table Formula ggplot2 MASS MCMCpack modeest plyr pracma Rcpp RcppArmadillo reshape scales testthat]; };
   MIRA = derive2 { name="MIRA"; version="1.4.1"; sha256="0wy4iisp6c0kfns34pr5am055b1x7wdnbdh8lgr5ll91wxz48sg9"; depends=[Biobase BiocGenerics bsseq data_table GenomicRanges ggplot2 IRanges S4Vectors]; };
-  MLInterfaces = derive2 { name="MLInterfaces"; version="1.62.1"; sha256="1h0x1p2h8x1h276wxx6kcnb4c4s5sglnmd58iigl81a224x8gxwp"; depends=[annotate Biobase BiocGenerics cluster fpc gbm gdata genefilter ggvis hwriter MASS mlbench pls RColorBrewer rda rpart sfsmisc shiny threejs]; };
+  MLInterfaces = derive2 { name="MLInterfaces"; version="1.62.1"; sha256="1h0x1p2h8x1h276wxx6kcnb4c4s5sglnmd58iigl81a224x8gxwp"; depends=[annotate Biobase BiocGenerics cluster fpc gbm gdata genefilter ggvis hwriter MASS mlbench pls RColorBrewer rpart sfsmisc shiny threejs]; };
   MLP = derive2 { name="MLP"; version="1.30.0"; sha256="03h7k5v620x2hw6k3gddaba40fwh6zvpmlnhf6mcml7ldsni95y9"; depends=[affy AnnotationDbi gdata gmodels gplots gtools plotrix]; };
   MLSeq = derive2 { name="MLSeq"; version="2.0.1"; sha256="1jaw2blnl7jsd2px069af7zqk69d04bma8m5vpqb941vx6yhk095"; depends=[Biobase caret DESeq2 edgeR foreach ggplot2 limma plyr sSeq SummarizedExperiment xtable]; };
   MMDiff2 = derive2 { name="MMDiff2"; version="1.10.0"; sha256="0ljdr6y3plzpf9j70ghw41x3jpb8p52lqb9987gm1mw7lxw9iraf"; depends=[Biobase Biostrings BSgenome GenomicRanges ggplot2 locfit RColorBrewer Rsamtools S4Vectors shiny]; };
@@ -538,7 +538,7 @@ in with self; {
   NADfinder = derive2 { name="NADfinder"; version="1.6.1"; sha256="0kz7dz95kdz5dz05bh7x6czrwdr1imaq1mv6bncxxhv1mffhmb9v"; depends=[ATACseqQC baseline BiocGenerics corrplot csaw EmpiricalBrownsMethod GenomeInfoDb GenomicAlignments GenomicRanges IRanges limma metap Rsamtools rtracklayer S4Vectors signal SummarizedExperiment trackViewer]; };
   NBSplice = derive2 { name="NBSplice"; version="1.0.6"; sha256="1nalcpj7n4qghmkrfq65xd4i0aack2yq4l2wwsy4z0sfi7gh6m49"; depends=[BiocParallel car edgeR ggplot2 MASS mppa reshape2]; };
   NCIgraph = derive2 { name="NCIgraph"; version="1.30.0"; sha256="16mxxrq6g4szig29cah2a13qp1ybsh8ci37izlq6gpxn0h00maym"; depends=[graph KEGGgraph R_methodsS3 RBGL RCy3]; };
-  NGScopy = derive2 { name="NGScopy"; version="1.16.1"; sha256="1zfasfbzzay402igag1ynffz2v9ad70wdy5vs02q0api3rkkn406"; depends=[changepoint rbamtools Xmisc]; };
+  NGScopy = derive2 { name="NGScopy"; version="1.16.1"; sha256="1zfasfbzzay402igag1ynffz2v9ad70wdy5vs02q0api3rkkn406"; depends=[changepoint Xmisc]; };
   NOISeq = derive2 { name="NOISeq"; version="2.26.1"; sha256="1wyhhi9ydlbjlz427093mdp5ppby77n37w5c2iyxlpsdk2m2nqsn"; depends=[Biobase Matrix]; };
   NTW = derive2 { name="NTW"; version="1.32.0"; sha256="10ndg6mina5wz3w87wpv4mnbxdyj6rhvc9jqf954wmh6gj04vyin"; depends=[mvtnorm]; };
   NanoStringDiff = derive2 { name="NanoStringDiff"; version="1.12.0"; sha256="1927ry931ckjrci6yfk3fh774bizh4yb5f7p7x1ra1yxzfizq7k3"; depends=[Biobase matrixStats Rcpp]; };
@@ -798,7 +798,7 @@ in with self; {
   TFutils = derive2 { name="TFutils"; version="1.2.0"; sha256="1gppabscwfbqyvwrnl7mppw9wp528plp3bxq7g73hhgackfwnwkc"; depends=[dplyr magrittr miniUI shiny]; };
   TIN = derive2 { name="TIN"; version="1.14.0"; sha256="0n5lx8pg066z9adjsfnslxw6fv0w0ibv7nk2yz8qaiq6zivvcc1y"; depends=[aroma_affymetrix data_table impute squash stringr WGCNA]; };
   TMixClust = derive2 { name="TMixClust"; version="1.4.0"; sha256="03i9fgq29xr3h72c2scb4fa6305l7bpwj6hgk0j1v7ark6xz5xqz"; depends=[Biobase BiocParallel cluster flexclust gss mvtnorm SPEM zoo]; };
-  TPP = derive2 { name="TPP"; version="3.10.1"; sha256="00rfxhzamz45phav239xki8jy9bj7f0r03wrl9d09ir5amis271p"; depends=[Biobase biobroom broom data_table doParallel dplyr foreach futile_logger ggplot2 gridExtra knitr limma magrittr MASS mefa nls2 openxlsx plyr purrr RColorBrewer RCurl reshape2 rmarkdown sme stringr tidyr VennDiagram VGAM]; };
+  TPP = derive2 { name="TPP"; version="3.10.1"; sha256="00rfxhzamz45phav239xki8jy9bj7f0r03wrl9d09ir5amis271p"; depends=[Biobase biobroom broom data_table doParallel dplyr foreach futile_logger ggplot2 gridExtra knitr limma magrittr MASS mefa nls2 openxlsx plyr purrr RColorBrewer RCurl reshape2 rmarkdown stringr tidyr VennDiagram VGAM]; };
   TRONCO = derive2 { name="TRONCO"; version="2.14.2"; sha256="1cqkk6zsfsjpq8iidvmpfvkfak3ryp2bl9p04in0sn8sl9is6nsq"; depends=[bnlearn cgdsr circlize doParallel foreach gridExtra gtable gtools igraph iterators R_matlab RColorBrewer Rgraphviz scales xtable]; };
   TSCAN = derive2 { name="TSCAN"; version="1.20.0"; sha256="1yas32djld4dlsmzi65dflmnrff48m7vb6j7wgr44jip416mh7l1"; depends=[combinat fastICA ggplot2 gplots igraph mclust mgcv plyr shiny]; };
   TSRchitect = derive2 { name="TSRchitect"; version="1.8.9"; sha256="0i5i7m2rfqgnr2n39hfdgbvlhm8aqa6c77i7jvp66lapskww4rgb"; depends=[AnnotationHub BiocGenerics BiocParallel GenomeInfoDb GenomicAlignments GenomicRanges gtools IRanges Rsamtools rtracklayer S4Vectors SummarizedExperiment]; };
@@ -1558,7 +1558,7 @@ in with self; {
   spikeLI = derive2 { name="spikeLI"; version="2.42.0"; sha256="055zbrbh6wf3vvnc9p8px2ffz9wdhdg0h96260r7c72ax3v6wi5g"; depends=[]; };
   spkTools = derive2 { name="spkTools"; version="1.38.0"; sha256="0rm2vlzid3wjm1g1kzmjklga1gcf852aznhxb1xr50v8drivkkz9"; depends=[Biobase gtools RColorBrewer]; };
   splatter = derive2 { name="splatter"; version="1.6.1"; sha256="1kw9shzqwph44q2fksgp79mrjq23j3806clc4xydw3ys2w4kspj8"; depends=[akima BiocGenerics BiocParallel checkmate crayon edgeR fitdistrplus ggplot2 locfit matrixStats scales scater SingleCellExperiment SummarizedExperiment]; };
-  spliceSites = derive2 { name="spliceSites"; version="1.30.0"; sha256="1j40awy9irx53d1cdsx52pnxirjrrvgsj9zx5qhl2556ca65l26n"; depends=[Biobase BiocGenerics Biostrings doBy IRanges rbamtools refGenome seqLogo]; };
+  spliceSites = derive2 { name="spliceSites"; version="1.30.0"; sha256="1j40awy9irx53d1cdsx52pnxirjrrvgsj9zx5qhl2556ca65l26n"; depends=[Biobase BiocGenerics Biostrings doBy IRanges seqLogo]; };
   splicegear = derive2 { name="splicegear"; version="1.54.0"; sha256="0phpkgjkc4c8lfr8xsciqyz7imsjpc3sxwsh95glxhrsm7i2mnip"; depends=[annotate Biobase XML]; };
   splineTimeR = derive2 { name="splineTimeR"; version="1.10.0"; sha256="15dzhijkhpy7d8hwif59bic83fk6fnyjpp4qi7y7vwq139j6yaj2"; depends=[Biobase FIs GeneNet GSEABase gtools igraph limma longitudinal]; };
   splots = derive2 { name="splots"; version="1.48.0"; sha256="0s10ha17p4yf6id0h0r0a2fk992jp4ah7v8ani689zy6pcc0w34d"; depends=[RColorBrewer]; };
@@ -1581,7 +1581,7 @@ in with self; {
   switchBox = derive2 { name="switchBox"; version="1.18.0"; sha256="1s49vi0vyh0bmrc6marn69hi9ln12j3kyjkkm2z5fpvv3rvxhgw7"; depends=[gplots pROC]; };
   switchde = derive2 { name="switchde"; version="1.8.1"; sha256="1ydc9h62iyfz0786c5zhz3189p2f7sf3z6fjlvqwjqxva5j0f12b"; depends=[dplyr ggplot2 SingleCellExperiment SummarizedExperiment]; };
   synapter = derive2 { name="synapter"; version="2.6.1"; sha256="19rf8kkqf070ldhnrdi3xl23j2slv4qadw9cx8wvc4p994f2abj9"; depends=[Biobase Biostrings cleaver knitr lattice MSnbase multtest qvalue RColorBrewer readr rmarkdown]; };
-  synergyfinder = derive2 { name="synergyfinder"; version="1.8.0"; sha256="1idc0lnjw8zx6nih1hrzfq9h40zkbdv0iv9si214wx4ynf0w18iv"; depends=[drc ggplot2 gplots gridBase lattice nleqslv reshape2 SpatialExtremes]; };
+  synergyfinder = derive2 { name="synergyfinder"; version="1.8.0"; sha256="1idc0lnjw8zx6nih1hrzfq9h40zkbdv0iv9si214wx4ynf0w18iv"; depends=[drc ggplot2 gplots gridBase lattice nleqslv reshape2]; };
   synlet = derive2 { name="synlet"; version="1.12.1"; sha256="13rghqqbkxni121ds0slf6cnj2g5zbm3sbbcli95z7mxy2wn3syg"; depends=[doBy dplyr ggplot2 magrittr RankProd RColorBrewer reshape2]; };
   systemPipeR = derive2 { name="systemPipeR"; version="1.16.1"; sha256="0qzydz87rld2nhwzbfgrw5jfgh8maa9y54mjx9c4285m11qj2shq"; depends=[annotate BatchJobs BiocGenerics Biostrings DESeq2 edgeR GenomicFeatures GenomicRanges ggplot2 GO_db GOstats limma pheatmap rjson Rsamtools ShortRead SummarizedExperiment VariantAnnotation]; };
   tRNA = derive2 { name="tRNA"; version="1.0.0"; sha256="1kzl79q0zim9y7px0dirk41qay96nl2bz8sw76nx56pr1d5jh245"; depends=[assertive BiocGenerics Biostrings GenomicRanges ggplot2 IRanges S4Vectors scales stringr XVector]; };
diff --git a/pkgs/development/r-modules/cran-packages.nix b/pkgs/development/r-modules/cran-packages.nix
index 8099944156b4..6dbb19fcb694 100644
--- a/pkgs/development/r-modules/cran-packages.nix
+++ b/pkgs/development/r-modules/cran-packages.nix
@@ -4,7 +4,7 @@
 # Rscript generate-r-packages.R cran >new && mv new cran-packages.nix
 
 { self, derive }:
-let derive2 = derive { snapshot = "2019-12-03"; };
+let derive2 = derive { snapshot = "2020-01-22"; };
 in with self; {
   A3 = derive2 { name="A3"; version="1.0.0"; sha256="017hq9pjsv1h9i7cqk5cfx27as54shlhdsdvr6jkhb8jfkpdb6cw"; depends=[pbapply xtable]; };
   ABACUS = derive2 { name="ABACUS"; version="1.0.0"; sha256="0m1dnkwjr1522l9ddbzzx7ayxvli17sbmk6s28adpmzzjwh2kd1i"; depends=[ggplot2 shiny]; };
@@ -46,7 +46,7 @@ in with self; {
   AHMbook = derive2 { name="AHMbook"; version="0.1.4"; sha256="1cxyk420pzhh1scagxjmpm328xrcc1mpdrrch92yfgbgx09zkr4c"; depends=[coda plotrix RandomFields raster sp unmarked]; };
   AHR = derive2 { name="AHR"; version="1.5.0"; sha256="0sscw80cz4r1xmdymp9knz0dfans7yzwjwklv7ahafxlflw5527h"; depends=[etm MASS Rcpp RcppArmadillo survival]; };
   AICcmodavg = derive2 { name="AICcmodavg"; version="2.2-2"; sha256="0kpdl31wmwk5i4cqcwlm66c9s0c2b793army9dx50hdgrrzqc0na"; depends=[lattice MASS Matrix nlme survival unmarked VGAM xtable]; };
-  AID = derive2 { name="AID"; version="2.4"; sha256="1r29kf2vnh1jhrhx22a176xbvhxjn12pcvdb7x3bd6qw5q3z2l0d"; depends=[ggplot2 MASS nortest psych tseries]; };
+  AID = derive2 { name="AID"; version="2.5"; sha256="0il6qjv1gcbxdf1lknsfij4vxzc31qyp359abqzdvkzyxwgbbzsy"; depends=[ggplot2 MASS nortest psych tseries]; };
   AIG = derive2 { name="AIG"; version="0.1.9"; sha256="1jnnfmcwxcv4fsdcz7jb2lgczxdwrq3qxg2bhsh1610iwz4gzii7"; depends=[dplyr magrittr mgcv rgl]; };
   AIM = derive2 { name="AIM"; version="1.01"; sha256="11lkfilxk265a7jkc1wq5xlgxa56xhg302f1q9xb7gmjnzdigb21"; depends=[survival]; };
   ALA4R = derive2 { name="ALA4R"; version="1.7.0"; sha256="1vprq3w8pzla2ffsalpqgzkdv8wqialr45sq0qa0xjdlsrdwxipp"; depends=[assertthat data_table digest httr jsonlite sp stringr wellknown]; };
@@ -55,7 +55,7 @@ in with self; {
   ALS = derive2 { name="ALS"; version="0.0.6"; sha256="1swrn39vy50fazkpf97r7c542gkj6mlvy8gmcxllg7mf2mqx546a"; depends=[Iso nnls]; };
   ALSCPC = derive2 { name="ALSCPC"; version="1.0"; sha256="0ippxzq5qwb9dnpvm1kxhc0fxh83rs9ny5rcvd30w2bp632q9qdx"; depends=[]; };
   ALSM = derive2 { name="ALSM"; version="0.2.0"; sha256="1g7zk8q462j4faq5wzzghkjc003ny6rj8hrymsgvh3fg3a72lvy3"; depends=[car leaps SuppDists]; };
-  ALTopt = derive2 { name="ALTopt"; version="0.1.1"; sha256="0frpnycnljz6r24cg4z99ivm3rbg9j1nxfkhw18vbrb7gcl1hqj6"; depends=[cubature lattice]; };
+  ALTopt = derive2 { name="ALTopt"; version="0.1.2"; sha256="1nbbvniramajg6k83xqgx7r0abjrfja8zz0y3g3j8qmvbcqmjx13"; depends=[cubature lattice]; };
   ALassoSurvIC = derive2 { name="ALassoSurvIC"; version="0.1.0"; sha256="0q02rz947bp6i7sbb5nzxq8ky74iprdnpbwnmnn7vg29vhca4b09"; depends=[Rcpp]; };
   AMAP_Seq = derive2 { name="AMAP.Seq"; version="1.0"; sha256="0z0rrzps6rm58k4m1ybg77s3w05m5zfya4x8ril78ksxsjwi3636"; depends=[]; };
   AMCP = derive2 { name="AMCP"; version="0.0.4"; sha256="051xvnr4zc25w00kh4gkffgigmhmcbqpwh9654jv37glr8ip2v3l"; depends=[]; };
@@ -75,8 +75,8 @@ in with self; {
   ANOVAreplication = derive2 { name="ANOVAreplication"; version="1.1.4"; sha256="0rq4aphjmqrr4pm55vpc8qr4rghqkmlsqsvxzarx3kmr3aqlmqg8"; depends=[quadprog shiny]; };
   APCanalysis = derive2 { name="APCanalysis"; version="1.0"; sha256="11snn5i8zyjpzf58ica762fpp14v7x5h8a8iwx4s4v81pgvlx862"; depends=[]; };
   APFr = derive2 { name="APFr"; version="1.0.2"; sha256="1vax7rfccds6qz3bi6n1h3nzl9jnxpwk331wmpsbqlk23md3m4g4"; depends=[]; };
-  APIS = derive2 { name="APIS"; version="0.1.0"; sha256="1kpf766b6mvig9gj9zhjgpr2yvbjinjrhzxv1109fv3igabzjxd9"; depends=[doParallel foreach ggplot2 gridExtra]; };
-  APML0 = derive2 { name="APML0"; version="0.9"; sha256="1scvcrcsjgdrq9gfv8qxbd703k76cyk01ml93bcr8j8kiwv05z0f"; depends=[Matrix Rcpp RcppEigen]; };
+  APIS = derive2 { name="APIS"; version="1.0.0"; sha256="1lifc1nlksprb9zjmirxkgjddd56avbp6dli93yqr9d81xasrp5p"; depends=[doParallel foreach ggplot2 gridExtra]; };
+  APML0 = derive2 { name="APML0"; version="0.10"; sha256="1l6mw1mqb7qnsvfv9w6yydqjsrwrsrqx3bpifyp43cf2q71yx5gp"; depends=[Matrix Rcpp RcppEigen]; };
   APPEstimation = derive2 { name="APPEstimation"; version="0.1.1"; sha256="1bg9ma4i3k3xdgyk2h4f368gqnczvlhvjw4114iznmrv1wl4g25c"; depends=[densratio]; };
   APSIM = derive2 { name="APSIM"; version="0.9.3"; sha256="1pqyy170h2s0kv7nf9v6xr8lgp8yh4psnmpi0naghjg7h72bl53k"; depends=[data_table lubridate plyr RSQLite sirad stringr]; };
   APSIMBatch = derive2 { name="APSIMBatch"; version="0.1.0.2374"; sha256="0j44ijq1v1k60lka9nmw8m1jfjw7pidny9bvswqy5v82gzmwl29d"; depends=[]; };
@@ -87,7 +87,7 @@ in with self; {
   ARCensReg = derive2 { name="ARCensReg"; version="2.1"; sha256="05zjk1wxqfigzg80lvx1940a059jfdr9zbzgzmz2n01glj1lvj63"; depends=[msm mvtnorm numDeriv tmvtnorm]; };
   ARHT = derive2 { name="ARHT"; version="0.1.0"; sha256="1fz81a202r8vk655dg6a03zfq3gfkimqjvmc95k3j02xz0iv58kn"; depends=[]; };
   ARIbrain = derive2 { name="ARIbrain"; version="0.2"; sha256="18c7yxkrnqh18gcfzvdc5wqig6ywdmjcy8rlz0fdj3b8fb84dfpr"; depends=[hommel plyr RNifti]; };
-  AROC = derive2 { name="AROC"; version="1.0-1"; sha256="086i2isgi65r0sanyisdwiwdca0v7hvi1bcvsmwdbwbcgqr1zh0b"; depends=[Hmisc MASS Matrix moments nor1mix np spatstat]; };
+  AROC = derive2 { name="AROC"; version="1.0-2"; sha256="1a7nxspq9kbzji417mr49i0s19ms8wyq48qz7rnlw1mrkipl4p6d"; depends=[Hmisc MASS Matrix moments nor1mix np spatstat]; };
   ARPobservation = derive2 { name="ARPobservation"; version="1.2.0"; sha256="1kgflalpymbsfzwg4c70mdxgrbsg8r8z44433v3y9rymhfyq9nmj"; depends=[]; };
   ART = derive2 { name="ART"; version="1.0"; sha256="186w1ivj5v3h906crl953qxgai5wiznaih83dgvwgnmabs9p1wvk"; depends=[car]; };
   ARTIVA = derive2 { name="ARTIVA"; version="1.2.3"; sha256="1jdvsslc8parz7wibcv51fx62brl2mc6i482hz43j1npsms2z1hl"; depends=[gplots igraph MASS]; };
@@ -104,7 +104,7 @@ in with self; {
   ASSOCShiny = derive2 { name="ASSOCShiny"; version="0.1.0"; sha256="1g1ba9d5ywd3gbwjb36xnms8l15dg1vwc6r0nsb5adhpb602xsw1"; depends=[arules arulesViz dplyr plotly rmarkdown shiny shinyMatrix]; };
   AST = derive2 { name="AST"; version="0.1.0"; sha256="0z5dw5qw0i61v4796ms7pp66f9y4ylxrcls31ixzcmkklh3rcnp3"; depends=[]; };
   ATE = derive2 { name="ATE"; version="0.2.0"; sha256="1i46ivb7q61kq11z9v1rlnwad914nsdjcz9bagqx17vjk160mc0a"; depends=[]; };
-  ATR = derive2 { name="ATR"; version="0.1-0"; sha256="0ljrpix3ksi0v38sfb25s2dlfj1yjbvwcz147dk2v2c24cn3r816"; depends=[partykit]; };
+  ATR = derive2 { name="ATR"; version="0.1-1"; sha256="0via7zm3byzbdgrfw351fqvx0g5cj2z31bqfwh7kr99nqgjh0dyn"; depends=[partykit]; };
   ATmet = derive2 { name="ATmet"; version="1.2"; sha256="047ibxxf5si45zw22zy8a1kpj36q0pd3bsmxwvn0dhf4h65ah0zz"; depends=[DiceDesign lhs metRology msm sensitivity]; };
   AUC = derive2 { name="AUC"; version="0.3.0"; sha256="0ripcib2qz0m7rgr1kiz68nx8f6p408l1ww7j78ljqik7p3g41g7"; depends=[]; };
   AUCRF = derive2 { name="AUCRF"; version="1.1"; sha256="00d7jcg2dyvf7sc9w7vxxd85m7nsbcmfqsavrv236vxfpfc9yn7i"; depends=[randomForest]; };
@@ -124,7 +124,6 @@ in with self; {
   ActiveDriver = derive2 { name="ActiveDriver"; version="1.0.0"; sha256="10c7ga48fwvpd5mc4dqiyw4kc2l0iz5qn4hg7xk15r1qmm5rsipa"; depends=[MASS]; };
   ActiveDriverWGS = derive2 { name="ActiveDriverWGS"; version="1.0.1"; sha256="08l9dj8d3cd74z1dqn8n4yqykwvqjxsfa067wnxyh7xnfvvnm5v1"; depends=[Biostrings BSgenome BSgenome_Hsapiens_UCSC_hg19 GenomeInfoDb GenomicRanges IRanges plyr S4Vectors]; };
   ActivePathways = derive2 { name="ActivePathways"; version="1.0.1"; sha256="1xb0d1svmzw404pv8ja6wr4773k7x2lxkrzrayilvzqbfzj1wx20"; depends=[data_table ggplot2 metap]; };
-  ActivityIndex = derive2 { name="ActivityIndex"; version="0.3.6"; sha256="14k6d78s15j7kb7jhixf4msrdjdl28d0r264cbvy41p8dkq7ysvk"; depends=[data_table matrixStats R_utils]; };
   AcuityView = derive2 { name="AcuityView"; version="0.1"; sha256="0f0iclmnwdc8ixiiai4svk4x1g3pjy7dhm3cm58fv6ckx12d3d2l"; depends=[fftwtools imager plotrix]; };
   AdMit = derive2 { name="AdMit"; version="2.1.3"; sha256="150zjxl56axhpgm25hzyhwwc5g77pkgi291d2v56zbjjqycfz2v8"; depends=[mvtnorm]; };
   AdaSampling = derive2 { name="AdaSampling"; version="1.3"; sha256="1c8dh8lxyb076317n4qk2g3qv5j4mc1dszbh3k1p2b0nxiprqk5i"; depends=[caret class e1071 MASS]; };
@@ -149,7 +148,7 @@ in with self; {
   AllPossibleSpellings = derive2 { name="AllPossibleSpellings"; version="1.1"; sha256="0ksfm2pfjka3yjgcd257v7sns1niaylsfxvhhh2jwdi016cpdw10"; depends=[]; };
   AlleleRetain = derive2 { name="AlleleRetain"; version="2.0.2"; sha256="0b6h5giskqbjbrk8nf29i75wrhxsjw1c87laiqzrpbp9n717bl20"; depends=[]; };
   AlphaPart = derive2 { name="AlphaPart"; version="0.7.0"; sha256="1bqwbjqmazjgmdpk5s0i3dl4hb3qhz2sy1drhazmgdxhf5qwsq85"; depends=[directlabels gdata ggplot2 pedigree quadprog Rcpp reshape]; };
-  AlphaSimR = derive2 { name="AlphaSimR"; version="0.11.0"; sha256="0p3a1rrgd8h02x79g49144igj6g58nnqb6bf7h4cwvjc2033w5si"; depends=[BH R6 Rcpp RcppArmadillo]; };
+  AlphaSimR = derive2 { name="AlphaSimR"; version="0.11.1"; sha256="0j8sw9pcxc1qbv6phcs92inyx6hwdfy05ww0y1a5dga39lap1r57"; depends=[BH R6 Rcpp RcppArmadillo]; };
   AlphaVantageClient = derive2 { name="AlphaVantageClient"; version="0.0.1"; sha256="095m850v945lw7i3qd812p28srdb5hdk9h52zf6bkr166zai1ni0"; depends=[httr xts]; };
   Amelia = derive2 { name="Amelia"; version="1.7.6"; sha256="1shvc8x1kmb0cincgggsv5c5w25k36kqvisdqd3ayy5g98vqvh33"; depends=[foreign Rcpp RcppArmadillo]; };
   AmericanCallOpt = derive2 { name="AmericanCallOpt"; version="0.95"; sha256="1nhy44j5bmmjsp6g79nrn741rzzxikhdnxk4wwbdj9igcc1bs573"; depends=[]; };
@@ -157,12 +156,11 @@ in with self; {
   AmigaFFH = derive2 { name="AmigaFFH"; version="0.3.1"; sha256="0mvw5zr7l29fgm6dan285gjnmmzz59a19v8b2w4j035jzbf1vffw"; depends=[tuneR]; };
   AmmoniaConcentration = derive2 { name="AmmoniaConcentration"; version="0.1"; sha256="05pnwfji9l9az4jvni6jy7cayzg5pbspz82a63kmj6rgibn4ywvn"; depends=[]; };
   AmostraBrasil = derive2 { name="AmostraBrasil"; version="1.2"; sha256="06y555gl9g89gygrv1rhg8j1bhb38m09mvvw67wvwhdl56j0fqbd"; depends=[foreign RCurl rgdal RJSONIO sp stringr]; };
-  AmpliconDuo = derive2 { name="AmpliconDuo"; version="1.1"; sha256="1vqpahavsksphxjyhd94dghg9ddskbfbs5vl5qcwl3jkjfvl7lwy"; depends=[ggplot2 xtable]; };
   AmyloGram = derive2 { name="AmyloGram"; version="1.1"; sha256="1xdi3i3nw4fzj4d040r55f0gid72gy3vbz5nbdrvapl97zk3kp8c"; depends=[biogram ranger seqinr shiny]; };
   AnDE = derive2 { name="AnDE"; version="1.0"; sha256="1yil8ab50wvlqmdla9kmfba8vfgy5r694r6igb58s6vnmld78yf2"; depends=[discretization foreign functional stringr]; };
   AnaCoDa = derive2 { name="AnaCoDa"; version="0.1.3.0"; sha256="1aps8fnh2d4vw5c9ypmgqnvwqzkjjfrmm7wq4xcy6lmlqks35zdv"; depends=[mvtnorm Rcpp]; };
   AnalyzeFMRI = derive2 { name="AnalyzeFMRI"; version="1.1-21"; sha256="1gn0ixxi42rw8vr4ykl232cmdcc1qqbbivhw3n8f20jgicwg8x06"; depends=[fastICA R_matlab tkrplot]; };
-  AnalyzeTS = derive2 { name="AnalyzeTS"; version="2.2"; sha256="0ll4g8yzxhricz56vin8hhyplrmvjmkwfldya41vz6y6bwhywnmb"; depends=[MASS TSA tseries TTR urca]; };
+  AnalyzeTS = derive2 { name="AnalyzeTS"; version="2.3"; sha256="0nvw5x8hjjhhhip6qv6qybbmzmim7c5k2a68zgw6hfqgvi6b3k0b"; depends=[MASS TSA tseries TTR urca]; };
   AncestryMapper = derive2 { name="AncestryMapper"; version="2.0"; sha256="1fr2y1a5rn7rq8aly94f618kywix32jwysi70nfhaqx8hf4zzprb"; depends=[svd]; };
   AnglerCreelSurveySimulation = derive2 { name="AnglerCreelSurveySimulation"; version="1.0.2"; sha256="1nhd0i30g5wb5jh96gfaa0lgnbnj0m2vy4gz7v2c3142396zalnx"; depends=[dplyr ggplot2]; };
   AnimalHabitatNetwork = derive2 { name="AnimalHabitatNetwork"; version="0.1.0"; sha256="1bhqypkiw5v9w26jbdmhndqj5hjfmf7zwivrq2hgs0zcjxwa8gfn"; depends=[ggplot2 igraph]; };
@@ -173,7 +171,7 @@ in with self; {
   AntMAN = derive2 { name="AntMAN"; version="1.0"; sha256="1dm2fb59r4drbyi21bf48c9r6ajhm507q80syl3xwyqimgbgm8ss"; depends=[mcclust mvtnorm Rcpp RcppArmadillo sdols]; };
   AntWeb = derive2 { name="AntWeb"; version="0.7"; sha256="1ykfg3zzjdvjppr2l4f26lx00cn5vaqhhz1j1b5yh113ggyl40qw"; depends=[assertthat httr leafletR plyr rjson]; };
   AnthropMMD = derive2 { name="AnthropMMD"; version="3.0.1"; sha256="0f2j4nwni87r11zav4lvy0c8k9v6yrk2li3vls2xa02nlci64x26"; depends=[plotrix scatterplot3d shiny smacof]; };
-  Anthropometry = derive2 { name="Anthropometry"; version="1.12"; sha256="1m9ynypl5hyyqqmknd9hgys927bsglhg3l9rydy36l7lk1kf2m9m"; depends=[archetypes biclust cluster depth FNN ICGE nnls rgl shapes]; };
+  Anthropometry = derive2 { name="Anthropometry"; version="1.13"; sha256="1f568ri1s6psaby8y737vrkarbjg64v89d4jyw23hy17apdmszr8"; depends=[archetypes biclust cluster depth FNN ICGE nnls rgl shapes]; };
   Aoptbdtvc = derive2 { name="Aoptbdtvc"; version="0.0.2"; sha256="1bygvf8vgzz3wa4485x2xxpk784zmw1nwsjjjysm12brrldh8zzh"; depends=[lpSolve MASS]; };
   ApacheLogProcessor = derive2 { name="ApacheLogProcessor"; version="0.2.3"; sha256="0h4snigh1yhp34vw52h4b6qbh9c4cvwz2cx8fwvbnw6lslmg5cgv"; depends=[doParallel foreach stringr]; };
   AppliedPredictiveModeling = derive2 { name="AppliedPredictiveModeling"; version="1.1-7"; sha256="1wi0sw5w1c51rmh9z98wdpk5rgzsylkkb6g019djiwxvj92l99hh"; depends=[CORElearn ellipse lattice MASS plyr reshape2]; };
@@ -185,7 +183,7 @@ in with self; {
   ArchaeoPhases = derive2 { name="ArchaeoPhases"; version="1.4"; sha256="1wdr72w0qfh165v5prgxx0py7344v8rw03rhnh7pi5rwd5nyxvhv"; depends=[coda DT ggalt ggplot2 ggthemes hdrcde readr shiny shinythemes toOrdinal]; };
   ArfimaMLM = derive2 { name="ArfimaMLM"; version="1.3"; sha256="0s5igf703zzvagsbdxf5yv4gn0vdq51b7fvbc8xkgvlmv91yy372"; depends=[fracdiff fractal lme4]; };
   ArgumentCheck = derive2 { name="ArgumentCheck"; version="0.10.2"; sha256="0mgx7mzbg2wynixcf9hvs0i9p4zka7c3chrfvjmvvvwwgsy24hkc"; depends=[]; };
-  Arothron = derive2 { name="Arothron"; version="1.1.0"; sha256="05i49wpzpab1yffxxifjr6iqz8qc1xba7pj9rlnvcmx29f5x8b6w"; depends=[abind alphashape3d compositions doParallel foreach geometry Morpho rgl Rvcg stringr vegan]; };
+  Arothron = derive2 { name="Arothron"; version="1.1.1"; sha256="18vman573mss704v5rqa13vq5nwlbdrg1j5b4wc441782znm34y3"; depends=[abind alphashape3d compositions doParallel foreach geometry Morpho rgl Rvcg stringr vegan]; };
   ArrayBin = derive2 { name="ArrayBin"; version="0.2"; sha256="0jlhcv2d7pmqi32w71nz063ri1yj4i4isr3msnw7ckzvi9r42jwm"; depends=[SAGx]; };
   AsioHeaders = derive2 { name="AsioHeaders"; version="1.12.1-1"; sha256="0phcagfjxrakkap0kffclcqjspb2rmhq81k934mxgh1qz5a68ksv"; depends=[]; };
   AssayCorrector = derive2 { name="AssayCorrector"; version="2.0.0"; sha256="0d2444if5hyfbzyminnspw686r5l4pf9cdj9k48n2539vd61k452"; depends=[kSamples lattice latticeExtra RColorBrewer RVAideMemoire]; };
@@ -194,8 +192,8 @@ in with self; {
   AssocAFC = derive2 { name="AssocAFC"; version="1.0.2"; sha256="1rjiiir472dnr15xyvpn81s62nf01gl70khr8mrni65ssp5m30fb"; depends=[CompQuadForm]; };
   AssocTests = derive2 { name="AssocTests"; version="0.0-4"; sha256="1fhqzbj4aj4srkiba79w8wdyc7yy701izklxqqa7lsifnca6gn4j"; depends=[cluster combinat fExtremes mvtnorm]; };
   AssotesteR = derive2 { name="AssotesteR"; version="0.1-10"; sha256="0aysilg79vprcyjirqz6c5s1ry1ia92xik3l38qrw1gf3vfli9cw"; depends=[mvtnorm]; };
-  AsyK = derive2 { name="AsyK"; version="1.3.2"; sha256="1ijl4cchbqaa13j3mnrjlg3kpxmqpjbvf48x6p9vvmhiy1n4974w"; depends=[decon ICV kedd kerdiest KernSmooth ks locfit OSCV sm]; };
-  AsynchLong = derive2 { name="AsynchLong"; version="2.0"; sha256="1wjby75rpypzyrxnv2lgl7h2fsvyni3bpiwclp0x7cl4sxic1x5c"; depends=[]; };
+  AsyK = derive2 { name="AsyK"; version="1.5.3"; sha256="0pa8j757kvb82n1hn2npvv3yam0s1l3mgd7130kz7pas2gkwwy5n"; depends=[decon ICV kedd kerdiest KernSmooth ks locfit OSCV sm]; };
+  AsynchLong = derive2 { name="AsynchLong"; version="2.1"; sha256="111kg1cacqlz4df1lnijybnrifjscjm78ji9p0ia615gacvdcfxa"; depends=[]; };
   AtelieR = derive2 { name="AtelieR"; version="0.24"; sha256="0yialpmbsbx70gvps4r58xg9wvqcril8j8yd61lkkmz4b3195zai"; depends=[cairoDevice gWidgetsRGtk2 partitions proto]; };
   AtmRay = derive2 { name="AtmRay"; version="1.31"; sha256="162078jd032i72sgaar9hqcnn1lh60ajcqpsz4l5ysxfkghcxlh8"; depends=[]; };
   AurieLSHGaussian = derive2 { name="AurieLSHGaussian"; version="0.2.0"; sha256="0dzwqv396inbx4r6758vr4gip1y42ahavspadgm4xhafvipg73rb"; depends=[flexclust igraph lsa reshape2 stringdist]; };
@@ -208,14 +206,15 @@ in with self; {
   AutoregressionMDE = derive2 { name="AutoregressionMDE"; version="1.0"; sha256="1dmg0q4sp2d2anzhw2my8xjhpyjsx0kf7r202q5bkw8yr57jnhvr"; depends=[]; };
   AzureAuth = derive2 { name="AzureAuth"; version="1.2.3"; sha256="0vi5888qvsmdwvzz46wabg2244liwfzyjd13h1d3wvbarzy7m8wf"; depends=[httr jose jsonlite openssl R6 rappdirs]; };
   AzureCognitive = derive2 { name="AzureCognitive"; version="1.0.0"; sha256="1yg8fq77fbgf21dg9zq7kkgqyx6ax9ma46yv1nhnvdhc3dpvax5a"; depends=[AzureAuth AzureRMR httr jsonlite]; };
-  AzureContainers = derive2 { name="AzureContainers"; version="1.1.2"; sha256="0k93zwl090jnkqa255rd0bhkimdnq61iavrfn40122g6hzd52xqk"; depends=[AzureGraph AzureRMR httr openssl R6]; };
+  AzureContainers = derive2 { name="AzureContainers"; version="1.2.0"; sha256="1mr1xpb1wl8khzhi6hcbfvxmn7jc1p4n7m76rc13axjgv6cb00zr"; depends=[AzureGraph AzureRMR httr openssl processx R6]; };
   AzureGraph = derive2 { name="AzureGraph"; version="1.1.0"; sha256="0b7bfzvv0115giahs12b0h4qq4fdc5qf5kc8hmvjca6jlgysgvf4"; depends=[AzureAuth httr jsonlite openssl R6]; };
-  AzureKeyVault = derive2 { name="AzureKeyVault"; version="1.0.2"; sha256="1kc16dfmaq825sfyc6ka8rc26qh95a70ljq9sg7xvwm05qm9y10l"; depends=[AzureAuth AzureGraph AzureRMR httr jose jsonlite openssl R6]; };
+  AzureKeyVault = derive2 { name="AzureKeyVault"; version="1.0.3"; sha256="06lz7cg3f9qrl9nzi54fsx37gm517skjl0jn1fwq4s4b07p4klia"; depends=[AzureAuth AzureGraph AzureRMR httr jose jsonlite openssl R6]; };
   AzureKusto = derive2 { name="AzureKusto"; version="1.0.4"; sha256="14gp9qif8p6h7dnw5isls2kvlf77bz3lwr15by2cpa0w5rvzamaj"; depends=[AzureAuth AzureRMR DBI dplyr httr jsonlite openssl R6 rlang tibble tidyselect]; };
   AzureRMR = derive2 { name="AzureRMR"; version="2.3.0"; sha256="01yj145897v2017asy31rxmkzng7zv1r6avnp2c8vl707cd7afd5"; depends=[AzureAuth AzureGraph httr jsonlite R6 uuid]; };
-  AzureStor = derive2 { name="AzureStor"; version="3.0.0"; sha256="1lxcvgs0gb7ybnqf2ifz5bpc50nn8375g5h6i5jvx6g8ahzppi0d"; depends=[AzureRMR httr mime openssl R6 xml2]; };
+  AzureStor = derive2 { name="AzureStor"; version="3.1.0"; sha256="0wnb7mrchcd3s6zs6ry09xzsvsvgb3s95gagvsprns7y0adgb85m"; depends=[AzureRMR httr mime openssl R6 xml2]; };
   AzureVM = derive2 { name="AzureVM"; version="2.1.0"; sha256="0vb295kcz7j53xhzgsril56b4l8d69jyvkni67bqk8cxxh4qvsgx"; depends=[AzureRMR jsonlite R6]; };
   AzureVMmetadata = derive2 { name="AzureVMmetadata"; version="1.0.0"; sha256="0k99ncp9zkyxl0r51041rfgq49gb65f5d3yc89d1gg2aqavk3g2y"; depends=[httr openssl]; };
+  AzureVision = derive2 { name="AzureVision"; version="1.0.0"; sha256="1mvnq65sh3kgxfwxvfp26vv0nwa3xldkp65ya4mm0rqxr4zm3h4w"; depends=[AzureCognitive AzureRMR httr]; };
   B2Z = derive2 { name="B2Z"; version="1.4"; sha256="0w7394vs883vb32gs6yhrc1kh5406rs851yb2gs8hqzxad1alvpn"; depends=[coda mvtnorm numDeriv]; };
   BACA = derive2 { name="BACA"; version="1.3"; sha256="1vbip7wbzix1s2izbm4058wmwar7w5rv3q8bmj9pm7hcapfi19k0"; depends=[ggplot2 RDAVIDWebService rJava]; };
   BACCO = derive2 { name="BACCO"; version="2.0-9"; sha256="0i1dnk0g3miyv3b60rzgjjm60180wxzv6v2q477r71q74b0v0r1y"; depends=[approximator calibrator emulator]; };
@@ -226,12 +225,11 @@ in with self; {
   BALCONY = derive2 { name="BALCONY"; version="0.2.10"; sha256="1wfy0dmwfzd9jp6g92ld8jqzx97grgq4h6dy4y5063vfd9i4slwx"; depends=[Biostrings dplyr progress readr Rpdb scales seqinr]; };
   BALD = derive2 { name="BALD"; version="1.0.0-3"; sha256="1azyqami07g3ax60j0ws3d1qha65k0svn2v5c9pisni0qch5xql0"; depends=[lattice logspline rjags]; };
   BALLI = derive2 { name="BALLI"; version="0.2.0"; sha256="0qmjwpj56n07dvjwfknqvc02f0y5mlwh2yz4lrw7c4wqgrckcpgi"; depends=[edgeR limma MASS]; };
-  BAMBI = derive2 { name="BAMBI"; version="2.1.0"; sha256="029yzjv6zj54g9g0g4c6aj89dilcasnjipsf2d95n1xkzpvssvyp"; depends=[bridgesampling coda future_apply gtools label_switching lattice loo mvtnorm qrng RColorBrewer Rcpp RcppArmadillo rootSolve scales]; };
-  BAMMtools = derive2 { name="BAMMtools"; version="2.1.6"; sha256="01mb40w3g0xy93pl9064ky8kd46sa7qlz6by1r6kchcfhajx8plv"; depends=[ape gplots Rcpp]; };
+  BAMBI = derive2 { name="BAMBI"; version="2.2.0"; sha256="1ch74zwv01a42vpvr9irdb2a3ivs1zrgdb907p50pq2lasmqdxah"; depends=[bridgesampling coda future_apply gtools label_switching lattice loo mvtnorm qrng RColorBrewer Rcpp RcppArmadillo rootSolve scales]; };
+  BAMMtools = derive2 { name="BAMMtools"; version="2.1.7"; sha256="1xpks3in0mj1b82z3ax2k3q06bgr3sj0nhr2dbs2crbvszb8hcp2"; depends=[ape gplots Rcpp]; };
   BANEScarparkinglite = derive2 { name="BANEScarparkinglite"; version="0.1.3"; sha256="0z2n4ikj9cr2vcafpn0kmn5v24pdy7cd98asdy7njg5l54hajsxc"; depends=[dplyr httr lubridate RCurl readr rvest XML xml2]; };
-  BANOVA = derive2 { name="BANOVA"; version="1.1.4"; sha256="10mapmichzmm99swp0hdbrr147cj9wr6mxpv5vyq5f0zh39mz43p"; depends=[coda rjags rstan runjags]; };
-  BART = derive2 { name="BART"; version="2.6"; sha256="1zghz9jpqcfhax39his97dwylx4l4yzjch49a6ibgkx10llb3dbr"; depends=[nlme nnet Rcpp survival]; };
-  BAS = derive2 { name="BAS"; version="1.5.3"; sha256="0xf8wd42mlk6dkkiwzf9lyb5fvqmpjsqyzay146d6p2y1zk65lc0"; depends=[]; };
+  BANOVA = derive2 { name="BANOVA"; version="1.1.6"; sha256="07lxnklz8a2jrrmljhngs1zdrasl7fmn8n60rp8ns394ar7w640m"; depends=[coda rjags rstan runjags]; };
+  BART = derive2 { name="BART"; version="2.7"; sha256="16klaqzp525da6swlcdcr13mjlm88zpqyqnzjk6l4nlcwa3b7z1m"; depends=[nlme nnet Rcpp survival]; };
   BASIX = derive2 { name="BASIX"; version="1.1"; sha256="18dkvv1iwskfnlpl6xridcgqpalbbpm2616mvc3hfrc0b26v01id"; depends=[]; };
   BASS = derive2 { name="BASS"; version="0.2.2"; sha256="1q3sihp2iv1ikggzgd2k3vh2myz8bz31rzlaavw0n84d0h1zjxy2"; depends=[]; };
   BASiNET = derive2 { name="BASiNET"; version="0.0.4"; sha256="0pmn4znqhpav729ai7zr027a7sx6bz2lmlk086crmwm1fnwipqq4"; depends=[Biostrings igraph randomForest rJava rmcfs RWeka]; };
@@ -247,12 +245,14 @@ in with self; {
   BBRecapture = derive2 { name="BBRecapture"; version="0.1"; sha256="05xzp5zjmkh0cyl47qfsz0l8drg8mimssybhycc4q69aif9scqxb"; depends=[HI lme4 locfit secr]; };
   BBmisc = derive2 { name="BBmisc"; version="1.11"; sha256="1lh1n4bvxzivb5rbz69mvd8xdgr3gr2bnqd68a39sd1530l8r90y"; depends=[checkmate]; };
   BCA = derive2 { name="BCA"; version="0.9-3"; sha256="0ksd6b0ykydgdn33x29bwwqkrp23cvdj3imps0l6qs1p4465j5nf"; depends=[car clv flexclust Rcmdr RcmdrMisc rpart]; };
+  BCA1SG = derive2 { name="BCA1SG"; version="0.1.0"; sha256="14jvi5gn19f72szcnyhfpdld00cc7gyih5qrm4bpzvp553f1svvk"; depends=[logOfGamma Matrix]; };
   BCBCSF = derive2 { name="BCBCSF"; version="1.0-1"; sha256="0hvhnra68i0x78n57nlbxmz0qwl2flng9w47089jw6f9hzkq9r7n"; depends=[abind]; };
   BCC1997 = derive2 { name="BCC1997"; version="0.1.1"; sha256="1lqbivjkc7858jn54av1v9bzp0as43klgndbzkr59dc3l128xp12"; depends=[]; };
   BCDating = derive2 { name="BCDating"; version="0.9.8"; sha256="1px9fimg3fqx8bfkzq6rl34xclc9gcjxqjvj5islpdy4f1ifwph3"; depends=[]; };
   BCE = derive2 { name="BCE"; version="2.1"; sha256="0dqp08pbq7r88yhvlwgzzk9dcdln7awlliy5mfq18j5jhiy7axiz"; depends=[FME limSolve Matrix]; };
   BCEA = derive2 { name="BCEA"; version="2.3-1.1"; sha256="0ppjcbcapmg6j5gdalw1j86w50xwaanvhld9zpzp5fvj8b7f016b"; depends=[dplyr MASS rlang]; };
   BCEE = derive2 { name="BCEE"; version="1.2"; sha256="08jsnsy7l182n0gy2jy0l9a7grr62g57gz3217fzapk2im2q648b"; depends=[BMA leaps Rcpp RcppArmadillo]; };
+  BCHM = derive2 { name="BCHM"; version="0.96"; sha256="1zmv6ghg76pdd98qngvkr9814sjq4ah5h0g2z6ch5fnvwry0r2bv"; depends=[cluster clValid coda crayon knitr plyr rjags]; };
   BCRA = derive2 { name="BCRA"; version="2.1"; sha256="0n1f2qcwca7lb90qmim5dc3wj3hf5b31nh0xiw64k1cv8lhqc0mz"; depends=[]; };
   BCSub = derive2 { name="BCSub"; version="0.5"; sha256="0c8dlxsx23qfyygmajg2amj78ax01kb3808d9hvy7g3hkgp2i2fp"; depends=[MASS mcclust nFactors Rcpp RcppArmadillo]; };
   BCellMA = derive2 { name="BCellMA"; version="0.3.4"; sha256="1njprs7ksv0w18ffs0agz0290aa2akw48225iaa3bjhbl08dpidl"; depends=[ggplot2 reshape2]; };
@@ -261,11 +261,11 @@ in with self; {
   BDEsize = derive2 { name="BDEsize"; version="1.2"; sha256="1b2lms4nmn6gfjmnjq1vq1g3s1ikv7pl4xpbsxfrph14g6awidax"; depends=[fpow ggplot2 shiny shinyalert]; };
   BDP2 = derive2 { name="BDP2"; version="0.1.3"; sha256="14m85sigx6hk0qzhfgih43m2lxp9xczmp9g3z4pping6msbnbdrz"; depends=[rmarkdown shiny shinyBS]; };
   BDWreg = derive2 { name="BDWreg"; version="1.2.0"; sha256="07j6dy69q1as1nwgp2790wzpzmjich2256cddhl7n3h2rs1dja74"; depends=[coda doParallel DWreg foreach MASS]; };
-  BDgraph = derive2 { name="BDgraph"; version="2.61"; sha256="0xq9zygxs7jli9cw4rsl9ajs6nnl5adfilb47cjdk263909fla5j"; depends=[igraph]; };
+  BDgraph = derive2 { name="BDgraph"; version="2.62"; sha256="1b1vfar940swvn3pcil848qsp8ji50fjjll8jjzp6y2adx0f8pby"; depends=[igraph]; };
   BE = derive2 { name="BE"; version="0.1.1"; sha256="1ldzj1fvbgmnp0cn7g348md2xskm2q5b7y6l1sm3pa2am8jc7ixa"; depends=[rtf]; };
   BEACH = derive2 { name="BEACH"; version="1.3.1"; sha256="0biq6c74k8vb8ykafzf3blyi08rp65x1vaw3bfpwdc1ihc9wrgjr"; depends=[devtools DT haven plyr rJava rtf sas7bdat shiny WriteXLS xtable]; };
   BEDASSLE = derive2 { name="BEDASSLE"; version="1.5"; sha256="1bz3lr0waly9vj9adwhmgs3lq7zjdkcbvm3y9rnn72qlrwmv5fbn"; depends=[emdbook MASS matrixcalc]; };
-  BEDMatrix = derive2 { name="BEDMatrix"; version="1.6.1"; sha256="0zsl9snsx3jv0j3wwa2b3f0kizj7n8s77y62vc0wa06zcqc2fjb8"; depends=[BH crochet Rcpp]; };
+  BEDMatrix = derive2 { name="BEDMatrix"; version="2.0.1"; sha256="03jf8k1sa43ddb6m07g78r1z3rx8aznywmwllsivi674am0qk1qj"; depends=[crochet]; };
   BENMMI = derive2 { name="BENMMI"; version="4.3-6"; sha256="07jmf4icij8yb83bf7x0vsaf60gcvdzaijjckv5400xjykpm7scm"; depends=[benthos dplyr ggplot2 jsonlite knitr markdown purrr readr tidyr xtable]; };
   BEQI2 = derive2 { name="BEQI2"; version="2.0-0"; sha256="19q29kkwww5hziffkm2yx7n4cpfcsyh0z4mljdcnjkwfp732sjig"; depends=[jsonlite knitr markdown plyr reshape2 xtable]; };
   BEST = derive2 { name="BEST"; version="0.5.1"; sha256="0yx3bkaaly0lriyd5xr7aay4c381a5iwanfixz9v37cmvs64rs4s"; depends=[coda HDInterval rjags]; };
@@ -276,58 +276,57 @@ in with self; {
   BGData = derive2 { name="BGData"; version="2.1.0"; sha256="168lvmcfj9ch2dfp8haykgz8cwmrp1yqn01hbyssqfgpc42lrgf3"; depends=[BEDMatrix bigmemory bit crochet ff LinkedMatrix symDMatrix synchronicity]; };
   BGGE = derive2 { name="BGGE"; version="0.6.5"; sha256="1h76c40y45xhf2vp9g0q5j9lfwh16q9axbk5c9aqn4md008xr1j2"; depends=[]; };
   BGLR = derive2 { name="BGLR"; version="1.0.8"; sha256="15cv5k44yj5cws9jjd70hvrkm8gzn5x4hfx408n2fbqbv289b5jy"; depends=[truncnorm]; };
-  BGPhazard = derive2 { name="BGPhazard"; version="1.2.3"; sha256="1yp92y5y3xh0hb1ring6jrma8g4q6210hm9572j8ji1jkafzxjw1"; depends=[survival]; };
+  BGPhazard = derive2 { name="BGPhazard"; version="2.0.0"; sha256="1qh3jylzdf66kx48gq83gc11d2qd27h4l88s965p25lw99lz528b"; depends=[dplyr ggplot2 ggthemes gridExtra magrittr purrr readr rlang survival tibble]; };
   BGSIMD = derive2 { name="BGSIMD"; version="1.0"; sha256="0xkr56z8l72wps7faqi5pna1nzalc3qj09jvd3v9zy8s7zf5r7w4"; depends=[]; };
-  BH = derive2 { name="BH"; version="1.69.0-1"; sha256="18mckfwxxv8m8rzaz03mg2h6vhaj7y131h6yasfg0s73nxj47zd0"; depends=[]; };
+  BH = derive2 { name="BH"; version="1.72.0-3"; sha256="1ay8vb6i730lipg8b8g3893vqglhw2kqpc29lwdrxdkb66iw33l8"; depends=[]; };
   BHAI = derive2 { name="BHAI"; version="0.99.2"; sha256="1hawa55mk590is8ziav7fdszsa3a42bqb0znzqsazz5lkg4daaa7"; depends=[MCMCpack plotrix prevtoinc]; };
   BHH2 = derive2 { name="BHH2"; version="2016.05.31"; sha256="1m4fcx979nbm97hi89vbjjix0sx6qhdzs486risck9bi7yzih5k4"; depends=[]; };
   BHMSMAfMRI = derive2 { name="BHMSMAfMRI"; version="1.3"; sha256="1cha6bw0zvv30y2hjl1a4d04g1r80dfa7r7zi63q5jjnnbklbswg"; depends=[oro_nifti wavethresh]; };
-  BHSBVAR = derive2 { name="BHSBVAR"; version="2.0.0"; sha256="1dgbwzl79ibg8fkin8h2q52jas9mzwn049jjjrsdf2p59mf2g4sn"; depends=[Rcpp RcppArmadillo]; };
+  BHSBVAR = derive2 { name="BHSBVAR"; version="2.0.2"; sha256="1y0fjdrg0wg66r3blb8app0h52f24v8vl04n0mgk9ypm45hm64my"; depends=[Rcpp RcppArmadillo]; };
   BHTSpack = derive2 { name="BHTSpack"; version="0.5"; sha256="1sz99sgxhiajxca5bx2ns9g9qs9ymsvh8i5882nlp7c78qxmqc4g"; depends=[R2HTML xtable]; };
   BICORN = derive2 { name="BICORN"; version="0.1.0"; sha256="0mqk8vgp6jdk7f0paa06yqlibkd1y3vs69pg7i9mkvxmda7p4nkq"; depends=[]; };
   BIEN = derive2 { name="BIEN"; version="1.2.3"; sha256="0p23kahba55gkk6wx10ii6vrni3b7ia2a4jb64ww4kwp86bknx3d"; depends=[ape DBI rgdal rgeos RPostgreSQL sp]; };
   BIFIEsurvey = derive2 { name="BIFIEsurvey"; version="3.3-12"; sha256="1kphczvj3rxyjvi93cx2j714scvmmpqv5wrg5pdyy8l891jxsr89"; depends=[miceadds Rcpp RcppArmadillo]; };
   BIGDAWG = derive2 { name="BIGDAWG"; version="2.3"; sha256="1lnw31dl161siml6vcp74c30g0rld962ry3am9ljxmd9mw83shnz"; depends=[haplo_stats httr knitr XML]; };
-  BIGL = derive2 { name="BIGL"; version="1.4.1"; sha256="1n9b5wyzh9nihhrxagdisv06g925aw5ihrszd8iplp8ffvjr5mns"; depends=[ggplot2 MASS minpack_lm numDeriv progress rgl robustbase scales]; };
+  BIGL = derive2 { name="BIGL"; version="1.4.2"; sha256="0lrc7d6g7kr28sjib21x6p7nivyy2s057l0zm4ml1f0h1dppkxdl"; depends=[ggplot2 MASS minpack_lm numDeriv progress rgl robustbase scales]; };
   BINCOR = derive2 { name="BINCOR"; version="0.2.0"; sha256="0x2s82jql429shk70bhjdy9kamz8dz5ymsxj6kp8ga1711bpwyq6"; depends=[pracma]; };
   BIOM_utils = derive2 { name="BIOM.utils"; version="0.9"; sha256="0xckhdvf15a62awfk9rjyqbi6rm7p4awxz7vg2m7bqiqzdll80p7"; depends=[]; };
   BIOMASS = derive2 { name="BIOMASS"; version="2.1.1"; sha256="0i7z0pxxp2b11gnsb51q89zk8wnxz1d86yv08xqf7zivgdf0sgpc"; depends=[data_table jsonlite minpack_lm rappdirs raster sp]; };
-  BIOdry = derive2 { name="BIOdry"; version="0.6"; sha256="0pf8fa53hx1drcy4g8sri9mllzinqi9anvz504c3wy1b9vjljqxv"; depends=[ecodist nlme]; };
+  BIOdry = derive2 { name="BIOdry"; version="0.7"; sha256="1psy1ckla8pdl3nshgzh7w6074fqfylkb3nn74hn0q02lgsz1vd6"; depends=[ecodist nlme]; };
   BIS = derive2 { name="BIS"; version="0.2.1"; sha256="0mngmchgc46wc9a7ksyqrvj6k46nm4ih7x69k3xijfia9bgkym0v"; depends=[dplyr readr rvest tidyr xml2]; };
   BKPC = derive2 { name="BKPC"; version="1.0.1"; sha256="17gmhf6qq8jn2xzkqvjq60xzy0slz6kgfpd0d6hlpnf30ww7q923"; depends=[kernlab]; };
   BLCOP = derive2 { name="BLCOP"; version="0.3.1"; sha256="1qfkljw5b1k4b5jd08hw6dsmvgr7vg3kjyib5s13q0mkxvclasym"; depends=[fBasics fMultivar fPortfolio MASS quadprog RUnit timeSeries]; };
   BLModel = derive2 { name="BLModel"; version="1.0.2"; sha256="0l5f2v5ggadmrci3qhhmxm3j9i6jii0anq5rv5vk50y2qzii2q15"; depends=[]; };
   BLOQ = derive2 { name="BLOQ"; version="0.1-0"; sha256="1ag0dy3cjdxhlspmzfdnpli030g6gwac50n5s30igcyrmw6kl4hf"; depends=[maxLik mvnmle mvtnorm]; };
-  BLPestimatoR = derive2 { name="BLPestimatoR"; version="0.3.0"; sha256="0q01v5xz45adn4zsdfh9s4c8g6rkbllh2y3lga6wgfn0wnhp6nzn"; depends=[Formula Matrix mvQuad numDeriv randtoolbox Rcpp RcppArmadillo]; };
-  BLR = derive2 { name="BLR"; version="1.5"; sha256="1aj4qs0zjca2ifx3y4a0s6c59lbsgracili2an5nr2rxnsl10aw6"; depends=[SuppDists]; };
+  BLPestimatoR = derive2 { name="BLPestimatoR"; version="0.3.2"; sha256="0prc2m3hixv8hmnyhr5549406ln509llkhpqra2ifpzif0waw704"; depends=[Formula Matrix mvQuad numDeriv randtoolbox Rcpp RcppArmadillo]; };
+  BLR = derive2 { name="BLR"; version="1.6"; sha256="1wivqh19kxgr7nwa09s5ay6x1yidjk4hqanv0mzb1nbik98w9024"; depends=[]; };
   BLRPM = derive2 { name="BLRPM"; version="1.0"; sha256="15q0jkw4swz35c58nv23k8g1dy1kkbqh5aydjck7pd0fmppqrhpx"; depends=[R6]; };
   BLRShiny = derive2 { name="BLRShiny"; version="0.1.0"; sha256="0z3gr0bvjs7y0jkygh7h9habnk2807cwziajpgfmb7dxdrhccj68"; depends=[caret dplyr e1071 ggplot2 rhandsontable rmarkdown shiny]; };
   BLSM = derive2 { name="BLSM"; version="0.1.0"; sha256="02xidwp91rh34rcqd0q552wzm2j80axs1nnwwv2aj04g96lf7myj"; depends=[Rcpp RcppEigen]; };
   BMA = derive2 { name="BMA"; version="3.18.11"; sha256="13b9agsra9lv00dkmx57zbf6n7xixxlihk7svxaafk8snbyyhk5z"; depends=[inline leaps robustbase rrcov survival]; };
-  BMAmevt = derive2 { name="BMAmevt"; version="1.0.3"; sha256="0p1y4yc502r4wjc1vkpa4q9d3xzxnyvp13y910vq5z5nqixjdfsp"; depends=[coda]; };
+  BMAmevt = derive2 { name="BMAmevt"; version="1.0.4"; sha256="10241cibzmgrmxzjw7fpw64qkayc1wig5xilahyc182841k4if6w"; depends=[coda]; };
   BMRBr = derive2 { name="BMRBr"; version="0.2.0"; sha256="0v2ysap5jfkq9fc5blqlfhsv2bs8rqybmp5z4q3g6y3y7qzhypjw"; depends=[rvest xml2]; };
   BMRSr = derive2 { name="BMRSr"; version="1.0.0"; sha256="0xdzzwmn2ibzgy68djsf7jxayfwd2yr1qsa0dcg9zl4rhl6b8nrl"; depends=[httr readr stringr tibble xml2]; };
   BMRV = derive2 { name="BMRV"; version="1.32"; sha256="1j1cwjk3l7f06nqdwrqdyhzm43bb8hj5wgdd14zc1grxyfc9ya95"; depends=[BH]; };
   BMS = derive2 { name="BMS"; version="0.3.4"; sha256="0z3mk1xd1fphf80kdbashkn04jwsr2bghms4d7nav3pw73q41wql"; depends=[]; };
   BMT = derive2 { name="BMT"; version="0.1.0.3"; sha256="1vdah5bsn41s2qriq15xi7dw9qzngaacmn5gk6yc7hi89dwyy3yj"; depends=[fitdistrplus partitions]; };
   BMTME = derive2 { name="BMTME"; version="1.0.12"; sha256="0v1f1c2nk7f51c017jscyzkx7y21b3lmxp46xgs8hqcfjfw9b65m"; depends=[BGLR doSNOW dplyr foreach matrixcalc mvtnorm progress Rcpp RcppArmadillo snow tidyr]; };
-  BMhyb = derive2 { name="BMhyb"; version="2.1.5"; sha256="0yyvrn5akj132zkxlg5kicj12d7agzmi84jird4aj7hvi88l5wwv"; depends=[ape corpcor cowplot DEoptim geiger ggplot2 igraph lhs MASS Matrix metR mvtnorm numDeriv phytools plyr TreeSim viridis]; };
-  BMhyd = derive2 { name="BMhyd"; version="1.2-8"; sha256="14pv5f621zq5x9i408zjm8k80hcsabkjpdf86gk3ylgw5yqcivrx"; depends=[ape corpcor geiger mvtnorm numDeriv phylobase phytools TreeSim]; };
   BMisc = derive2 { name="BMisc"; version="1.3.1"; sha256="0wh17bf1ii6zan09n59cf9257nb60nh08ig01id9k0bvm9f14ay6"; depends=[formula_tools plm]; };
   BNDataGenerator = derive2 { name="BNDataGenerator"; version="1.0"; sha256="17zi83jhpn9ygavkpr9haffvd4622sca18jzzxxxmfq0ilrj201g"; depends=[]; };
   BNN = derive2 { name="BNN"; version="1.0.2"; sha256="13h9xqfdqnc9d8brx1xlmvb4nrkpwncwjz98y7i3wijih85wkikd"; depends=[mvtnorm]; };
   BNPMIXcluster = derive2 { name="BNPMIXcluster"; version="1.2.4"; sha256="06s0cs3anbby93n7pjcin9195agfzfq9im6f9k7ih3cbg8mzfaqy"; depends=[gplots MASS matrixcalc mvtnorm plyr Rcp