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Branched shiny validate to warning #10

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Merged
veitveit merged 7 commits into from
Nov 18, 2025
Merged

Branched shiny validate to warning #10

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5f4dab1
bump x.y.z version to even y prior to creation of RELEASE_3_22 branch
jwokaty Oct 29, 2025
72e8c77
bump x.y.z version to odd y following creation of RELEASE_3_22 branch
jwokaty Oct 29, 2025
318a2e7
branched shiny validate to warning
veitveit Nov 18, 2025
c1328df
fix for visualization
veitveit Nov 18, 2025
4869790
Update R/PrepareData.R
veitveit Nov 18, 2025
e125f88
Update R/PrepareData.R
veitveit Nov 18, 2025
22da173
Update man/pcaWithVar.Rd
veitveit Nov 18, 2025
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8 changes: 4 additions & 4 deletions ..Rcheck/00check.log
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Original file line number Diff line number Diff line change
@@ -1,10 +1,10 @@
* using log directory ‘/home/veit/devel/Bioinformatics/DataAnalysis/ShinyApps/vsclust/..Rcheck’
* using R version 4.4.2 (2024-10-31)
* using R version 4.5.0 (2025-04-11)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
* running under: Ubuntu 24.04.1 LTS
gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.2 LTS
* using session charset: UTF-8
* checking for file ‘./DESCRIPTION’ ... ERROR
Required fields missing or empty:
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4 changes: 2 additions & 2 deletions DESCRIPTION
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Expand Up @@ -2,7 +2,7 @@ Package: vsclust
Encoding: UTF-8
Type: Package
Title: Feature-based variance-sensitive quantitative clustering
Version: 1.11.2
Version: 1.13.1
Date: 2022-03-23
Authors@R:
person(
Expand Down Expand Up @@ -45,4 +45,4 @@ VignetteBuilder: knitr
Depends: R (>= 4.2.0)
Config/testthat/edition: 3
LazyData: false
RoxygenNote: 7.3.2
RoxygenNote: 7.3.3
1 change: 1 addition & 0 deletions NAMESPACE
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Expand Up @@ -40,6 +40,7 @@ importFrom(matrixStats,rowSds)
importFrom(qvalue,qvalue)
importFrom(shiny,getDefaultReactiveDomain)
importFrom(shiny,incProgress)
importFrom(shiny,isRunning)
importFrom(shiny,need)
importFrom(shiny,validate)
useDynLib(vsclust, .registration = TRUE)
4 changes: 2 additions & 2 deletions R/EvaluateClustering.R
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Expand Up @@ -182,7 +182,8 @@ mfuzz.plot <-
colorseq <- seq(0, 1, length = length(colo))
for (j in seq_len(max(clusterindex))) {
if (sum(clusterindex == j) > 0) {
tmp <- dat[clusterindex == j,]
# keep matrices in place even if a cluster has just one member
tmp <- dat[clusterindex == j,, drop = FALSE]
tmpmem <- memship[clusterindex == j, j]
if (((j - 1) %% (mfrow[1] * mfrow[2])) == 0) {
if (!is.na(filename)) {
Expand Down Expand Up @@ -375,4 +376,3 @@ estimClust.plot <- function(ClustInd) {
# finally plot
p <- recordPlot()
}

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