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test pipeline input
Toby Dylan Hocking edited this page Nov 16, 2018
·
3 revisions
When running
R -e 'source("https://raw.githubusercontent.com/tdhock/PeakSegPipeline/master/tests/testthat/test-pipeline-input.R")'I got the following terminal output on my laptop: (last updated 16 Nov 2018)
tdhock@recycled:~$ rm -rf ~/PeakSegPipeline-test/input && R --vanilla < R/PeakSegPipeline/tests/testthat/test-pipeline-input.R
R version 3.5.1 (2018-07-02) -- "Feather Spray"
Copyright (C) 2018 The R Foundation for Statistical Computing
Platform: i686-pc-linux-gnu (32-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
Natural language support but running in an English locale
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(testthat)
> library(PeakSegPipeline)
> library(data.table)
> context("input")
> options(
+ mc.cores=parallel::detectCores())
> test.data.dir <- file.path(Sys.getenv("HOME"), "PeakSegPipeline-test")
> non.integer.dir <- file.path(test.data.dir, "non-integer")
> demo.dir <- file.path(test.data.dir, "input")
> index.html <- file.path(demo.dir, "index.html")
> ## Download bigWig files from github.
> bigWig.part.vec <- c(
+ "Input/MS010302",
+ "bcell/MS010302",
+ ## "Input/MS002202",
+ ## "kidney/MS002202",
+ ## "Input/MS026601",
+ ## "bcell/MS026601",
+ ## "Input/MS002201",
+ "kidney/MS002201"
+ )
> download.to <- function
+ (u, f, writeFun=if(grepl("bigWig", f))writeBin else writeLines){
+ if(!file.exists(f)){
+ require(httr)
+ f.dir <- dirname(f)
+ dir.create(f.dir, showWarnings=FALSE, recursive=TRUE)
+ request <- GET(u)
+ stop_for_status(request)
+ writeFun(content(request), f)
+ }
+ }
>
> label.txt <- "
+ chr10:33,061,897-33,162,814 noPeaks
+ chr10:33,456,000-33,484,755 peakStart kidney
+ chr10:33,597,317-33,635,209 peakEnd kidney
+ chr10:33,662,034-33,974,942 noPeaks
+
+ chr10:35,182,820-35,261,001 noPeaks
+ chr10:35,261,418-35,314,654 peakStart kidney
+ chr10:35,343,031-35,398,459 peakEnd kidney
+
+ chr10:38,041,023-38,102,554 noPeaks
+ chr10:38,296,008-38,307,179 peakStart kidney
+ chr10:38,379,045-38,391,967 peakStart kidney
+ chr10:38,404,899-38,412,089 peakEnd kidney
+ chr10:38,413,073-38,444,133 noPeaks
+
+ chr10:38,585,584-38,643,190 noPeaks
+ chr10:38,643,191-38,650,766 peakStart kidney
+ chr10:38,731,066-38,750,574 peakEnd kidney
+ chr10:38,750,960-38,790,663 noPeaks
+
+ chr10:38,807,475-38,815,200 noPeaks
+ chr10:38,815,201-38,816,355 peakStart kidney Input
+ chr10:38,818,377-38,819,342 peakEnd kidney Input
+ "
>
> chrom.sizes.file <- tempfile()
> chrom.sizes <- data.table(chrom="chr10", bases=128616069)
> fwrite(chrom.sizes, chrom.sizes.file, sep="\t", col.names=FALSE)
> repos.url <- "https://raw.githubusercontent.com/tdhock/input-test-data/master/"
> for(bigWig.part in bigWig.part.vec){
+ bigWig.file <- file.path(
+ non.integer.dir, "samples",
+ bigWig.part, "coverage.bigWig")
+ bigWig.url <- paste0(repos.url, bigWig.part, ".bigwig")
+ download.to(bigWig.url, bigWig.file)
+ demo.bigWig <- sub("non-integer", "input", bigWig.file)
+ if(!file.exists(demo.bigWig)){
+ dir.create(dirname(demo.bigWig), showWarnings=FALSE, recursive=TRUE)
+ bw.dt <- readBigWig(bigWig.file, "chr10", 0, 128616069)
+ out.dt <- data.table(chrom="chr10", bw.dt)
+ demo.bedGraph <- sub("bigWig", "bedGraph", demo.bigWig)
+ fwrite(out.dt, demo.bedGraph, sep="\t", col.names=FALSE)
+ system.or.stop(
+ paste("bedGraphToBigWig", demo.bedGraph, chrom.sizes.file, demo.bigWig))
+ unlink(demo.bedGraph)
+ }
+ }
Loading required package: httr
>
> sample.dir <- dirname(demo.bigWig)
> problem.dir <- file.path(sample.dir, "problems", "chr10:18024675-38818835")
> coverage.bedGraph <- file.path(problem.dir, "coverage.bedGraph")
> unlink(coverage.bedGraph)
> test_that("computing coverage is silent by default", {
+ out.vec <- capture.output({
+ problem <- problem.coverage(problem.dir)
+ })
+ expect_identical(out.vec, character())
+ })
>
> unlink(coverage.bedGraph)
> test_that("computing coverage is verbose when creating file", {
+ out.vec <- capture.output({
+ problem <- problem.coverage(problem.dir, verbose=1)
+ })
+ expect_match(out.vec, "bigWigToBedGraph")
+ })
>
> test_that("computing coverage is silent when not creating file", {
+ out.vec <- capture.output({
+ problem <- problem.coverage(problem.dir, verbose=1)
+ })
+ expect_identical(out.vec, character())
+ })
>
> for(set.dir in c(non.integer.dir, demo.dir)){
+ labels.file <- file.path(set.dir, "labels", "some_labels.txt")
+ dir.create(dirname(labels.file), showWarnings=FALSE, recursive=TRUE)
+ writeLines(label.txt, labels.file)
+ problems.bed <- file.path(set.dir, "problems.bed")
+ unlink(problems.bed)
+ cat("chr10 18024675 38818835", file=problems.bed)
+ }
>
> ## Pipeline should raise error for non-integer data.
> test_that("error for non-integer data in bigWigs", {
+ expect_error({
+ pipeline(non.integer.dir)
+ }, "non-integer data in")
+ })
Read 1 problems from /home/tdhock/PeakSegPipeline-test/non-integer/problems.bed
Writing 2 / 3 samples 19 labels 1 labeled problems /home/tdhock/PeakSegPipeline-test/non-integer/samples/Input/MS010302/problems
Writing 3 / 3 samples 19 labels 1 labeled problems /home/tdhock/PeakSegPipeline-test/non-integer/samples/kidney/MS002201/problems
Writing 1 jointProblems.bed.sh scripts.
Writing 5 chunks in /home/tdhock/PeakSegPipeline-test/non-integer/problems/chr10:18024675-38818835
chrom chromStart chromEnd coverage count.num.str count.int
1: chr10 33061063 33061100 0.1242 0.1242 0
2: chr10 33061100 33061116 0.2484 0.2484 0
3: chr10 33061116 33061144 0.3726 0.3726 0
4: chr10 33061144 33061163 0.4968 0.4968 0
5: chr10 33061163 33061200 0.3726 0.3726 0
---
277372: chr10 38818823 38818826 1.2420 1.242 1
277373: chr10 38818826 38818830 0.9936 0.9936 1
277374: chr10 38818830 38818833 0.8694 0.8694 1
277375: chr10 38818833 38818834 0.6210 0.621 1
277376: chr10 38818834 38818835 0.3726 0.3726 0
count.int.str
1: 0
2: 0
3: 0
4: 0
5: 0
---
277372: 1
277373: 1
277374: 1
277375: 1
277376: 0
> unlink(non.integer.dir, recursive=TRUE, force=TRUE)
>
> ## Set time limit.
> (sample.dir.vec <- Sys.glob(file.path(
+ demo.dir, "samples", "*", "*")))
[1] "/home/tdhock/PeakSegPipeline-test/input/samples/bcell/MS010302"
[2] "/home/tdhock/PeakSegPipeline-test/input/samples/Input/MS010302"
[3] "/home/tdhock/PeakSegPipeline-test/input/samples/kidney/MS002201"
> prob.dir.vec <- file.path(
+ sample.dir.vec, "problems", "chr10:18024675-38818835")
> limit.dt <- data.table(minutes=5)
> for(prob.dir in prob.dir.vec){
+ dir.create(prob.dir, showWarnings=FALSE, recursive=TRUE)
+ limit.file <- file.path(prob.dir, "target.minutes")
+ fwrite(limit.dt, limit.file, col.names=FALSE)
+ }
>
> ## Pipeline should run to completion for integer count data.
> unlink(index.html)
> test_that("index.html is created", {
+ pipeline(demo.dir, verbose=1)
+ expect_true(file.exists(index.html))
+ })
Read 1 problems from /home/tdhock/PeakSegPipeline-test/input/problems.bed
Writing 2 / 3 samples 19 labels 1 labeled problems /home/tdhock/PeakSegPipeline-test/input/samples/Input/MS010302/problems
Writing 3 / 3 samples 19 labels 1 labeled problems /home/tdhock/PeakSegPipeline-test/input/samples/kidney/MS002201/problems
Writing 1 jointProblems.bed.sh scripts.
Writing 5 chunks in /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835
bigWigToBedGraph -chrom=chr10 -start=18024675 -end=38818835 /home/tdhock/PeakSegPipeline-test/input/samples/Input/MS010302/coverage.bigWig /home/tdhock/PeakSegPipeline-test/input/samples/Input/MS010302/problems/chr10:18024675-38818835/coverage.bedGraph
19 labels in chr10:18024675-38818835
Next = 0, Inf mc.cores= 2
penalty peaks fp fn errors
1: 0 89411 19 0 19
2: Inf 0 0 2 2
0.471961 minutes elapsed / 5.000000 limit
Target interval: 5.531713 Inf change: Inf NaN
Next = 252.576236683382 mc.cores= 2
penalty peaks fp fn errors
1: 0.0000 89411 19 0 19
2: 252.5762 4938 18 0 18
3: Inf 0 0 2 2
0.958834 minutes elapsed / 5.000000 limit
Target interval: 8.337237 Inf change: 2.805524 NaN
Next = 4176.53405795013 mc.cores= 2
penalty peaks fp fn errors
1: 0.0000 89411 19 0 19
2: 252.5762 4938 18 0 18
3: 4176.5341 10 12 0 12
4: Inf 0 0 2 2
1.683822 minutes elapsed / 5.000000 limit
Target interval: 14.396637 Inf change: 6.059400 NaN
Next = 1788050.95083481 mc.cores= 2
penalty peaks fp fn errors
1: 0.0000 89411 19 0 19
2: 252.5762 4938 18 0 18
3: 4176.5341 10 12 0 12
4: 1788050.9508 1 1 2 3
5: Inf 0 0 2 2
2.270906 minutes elapsed / 5.000000 limit
Target interval: 16.685831 Inf change: 2.289194 NaN
Next = 26426.9587447508 mc.cores= 2
penalty peaks fp fn errors
1: 0.0000 89411 19 0 19
2: 252.5762 4938 18 0 18
3: 4176.5341 10 12 0 12
4: 26426.9587 3 2 0 2
5: 1788050.9508 1 1 2 3
6: Inf 0 0 2 2
3.035339 minutes elapsed / 5.000000 limit
Target interval: 16.685831 Inf change: 0.000000 NaN
Next = 91583.9843795932, 7810.66570622437 mc.cores= 2
penalty peaks fp fn errors
1: 0.0000 89411 19 0 19
2: 252.5762 4938 18 0 18
3: 4176.5341 10 12 0 12
4: 7810.6657 5 3 0 3
5: 26426.9587 3 2 0 2
6: 1788050.9508 1 1 2 3
7: Inf 0 0 2 2
4.103760 minutes elapsed / 5.000000 limit
Target interval: 16.685831 Inf change: 0.000000 NaN
19 labels in chr10:18024675-38818835
Next = 0, Inf mc.cores= 2
penalty peaks fp fn errors
1: 0 188109 19 0 19
2: Inf 0 0 11 11
0.914062 minutes elapsed / 5.000000 limit
Target interval: 5.547819 Inf change: Inf NaN
Next = 256.677224108443 mc.cores= 2
penalty peaks fp fn errors
1: 0.0000 188109 19 0 19
2: 256.6772 5303 17 0 17
3: Inf 0 0 11 11
2.784869 minutes elapsed / 5.000000 limit
Target interval: 9.079821 Inf change: 3.532002 NaN
Next = 8776.39558337603 mc.cores= 2
penalty peaks fp fn errors
1: 0.0000 188109 19 0 19
2: 256.6772 5303 17 0 17
3: 8776.3956 45 8 2 10
4: Inf 0 0 11 11
4.587871 minutes elapsed / 5.000000 limit
Target interval: 6.548532 13.767020 change: -2.531289 -Inf
Next = 698.218644190145, 952666.492166474 mc.cores= 2
penalty peaks fp fn errors
1: 0.0000 188109 19 0 19
2: 256.6772 5303 17 0 17
3: 8776.3956 45 8 2 10
4: 952666.4922 2 4 10 14
5: Inf 0 0 11 11
8.141927 minutes elapsed / 5.000000 limit
Target interval: 6.548532 11.890233 change: 0.000000 -1.876787
Searching for /home/tdhock/PeakSegPipeline-test/input/samples/*/*/problems/*/target.tsv files for training.
Found 2 target.tsv files for training.
Feature matrix:
log.quartile.100% log.data
[1,] 4.110874 12.21546
[2,] 4.189655 12.95923
Target matrix:
[,1] [,2]
[1,] 16.685830 Inf
[2,] 6.548532 11.89023
Learned regularization parameter and weights:
0
(Intercept) 365.42049
log.quartile.100% -64.33857
log.data -6.81488
Train errors:
status targets
1: correct 2
Writing model to /home/tdhock/PeakSegPipeline-test/input/model.RData
Computed /home/tdhock/PeakSegPipeline-test/input/samples/bcell/MS010302/problems/chr10:18024675-38818835/features.tsv
Predicting penalty=50694763576390256 log(penalty)=38.4645990176569 based on 2 features.
Writing /home/tdhock/PeakSegPipeline-test/input/samples/bcell/MS010302/problems/chr10:18024675-38818835/peaks.bed with 0 peaks.
Predicting penalty=47957703.3405821 log(penalty)=17.6858299999999 based on 2 features.
Writing /home/tdhock/PeakSegPipeline-test/input/samples/Input/MS010302/problems/chr10:18024675-38818835/peaks.bed with 0 peaks.
Predicting penalty=1897.95448808123 log(penalty)=7.54853199999999 based on 2 features.
Writing /home/tdhock/PeakSegPipeline-test/input/samples/kidney/MS002201/problems/chr10:18024675-38818835/peaks.bed with 111 peaks.
111 total peaks form 111 overlapping peak clusters.
Found 4 labeled regions with no peaks out of 19 total.
Creating 115 joint segmentation problems for chr10:18024675-38818835
1 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33041006-33091742
Found 3 bigWig files to jointly segment in chr10:33041006-33091742.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33041006-33091742/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 7.990446 1 0
2: 7.990446 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 7.990446 1 0
2: 7.990446 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample -Inf Inf 0
2: group -Inf Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33041006-33091742/target.tsv
2 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33097057-33108182
Found 3 bigWig files to jointly segment in chr10:33097057-33108182.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33097057-33108182/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.306838 2 1
2: 6.306838 7.912072 1 1
3: 7.912072 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.306838 2 1
2: 6.306838 7.912072 1 1
3: 7.912072 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 7.912072 Inf 0
2: group 7.912072 Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33097057-33108182/target.tsv
3 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33108182-33132211
Found 3 bigWig files to jointly segment in chr10:33108182-33132211.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33108182-33132211/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 2.888006 3 2
2: 2.888006 6.814289 2 1
3: 6.814289 7.186306 1 1
4: 7.186306 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 2.888006 3 2
2: 2.888006 6.814289 2 1
3: 6.814289 7.186306 1 1
4: 7.186306 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 7.186306 Inf 0
2: group 7.186306 Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33108182-33132211/target.tsv
4 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33132211-33156144
Found 3 bigWig files to jointly segment in chr10:33132211-33156144.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33132211-33156144/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 5.036808 3 2
2: 5.036808 6.583467 2 1
3: 6.583467 9.014140 1 1
4: 9.014140 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 5.036808 3 2
2: 5.036808 6.583467 2 1
3: 6.583467 9.014140 1 1
4: 9.014140 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 9.01414 Inf 0
2: group 9.01414 Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33132211-33156144/target.tsv
5 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33156144-33180464
Found 3 bigWig files to jointly segment in chr10:33156144-33180464.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33156144-33180464/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.981153 2 0
2: 6.981153 7.810571 1 0
3: 7.810571 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.981153 2 0
2: 6.981153 7.810571 1 0
3: 7.810571 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample -Inf Inf 0
2: group -Inf Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33156144-33180464/target.tsv
6 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33342875-33458386
Found 3 bigWig files to jointly segment in chr10:33342875-33458386.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33342875-33458386/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 7.406368 2 0
2: 7.406368 8.908261 1 0
3: 8.908261 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 7.406368 2 0
2: 7.406368 8.908261 1 0
3: 8.908261 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample -Inf Inf 0
2: group -Inf Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33342875-33458386/target.tsv
7 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33458386-33487678
Found 3 bigWig files to jointly segment in chr10:33458386-33487678.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33458386-33487678/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 10.98177 1 0
2: 10.98177 Inf 0 1
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 10.98177 1 0
2: 10.98177 Inf 0 1
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample -Inf 10.98177 0
2: group -Inf 10.98177 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33458386-33487678/target.tsv
8 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33618486-33642930
Found 3 bigWig files to jointly segment in chr10:33618486-33642930.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33618486-33642930/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.017890 2 1
2: 6.017890 8.284623 1 1
3: 8.284623 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.017890 2 1
2: 6.017890 8.284623 1 1
3: 8.284623 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 8.284623 Inf 0
2: group 8.284623 Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33618486-33642930/target.tsv
9 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33767266-33812833
Found 3 bigWig files to jointly segment in chr10:33767266-33812833.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33767266-33812833/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 8.774624 1 0
2: 8.774624 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 8.774624 1 0
2: 8.774624 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample -Inf Inf 0
2: group -Inf Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33767266-33812833/target.tsv
10 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33849609-33870366
Found 3 bigWig files to jointly segment in chr10:33849609-33870366.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33849609-33870366/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 2.626448 3 2
2: 2.626448 5.927810 2 1
3: 5.927810 7.957248 1 1
4: 7.957248 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 2.626448 3 2
2: 2.626448 5.927810 2 1
3: 5.927810 7.957248 1 1
4: 7.957248 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 7.957248 Inf 0
2: group 7.957248 Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33849609-33870366/target.tsv
11 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33871963-33895109
Found 3 bigWig files to jointly segment in chr10:33871963-33895109.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33871963-33895109/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.108391 2 1
2: 6.108391 7.955444 1 1
3: 7.955444 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.108391 2 1
2: 6.108391 7.955444 1 1
3: 7.955444 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 7.955444 Inf 0
2: group 7.955444 Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33871963-33895109/target.tsv
12 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33895109-33964872
Found 3 bigWig files to jointly segment in chr10:33895109-33964872.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33895109-33964872/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 4.681209 2 2
2: 4.681209 7.818968 1 1
3: 7.818968 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 4.681209 2 2
2: 4.681209 7.818968 1 1
3: 7.818968 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 7.818968 Inf 0
2: group 7.818968 Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33895109-33964872/target.tsv
13 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35143486-35229799
Found 3 bigWig files to jointly segment in chr10:35143486-35229799.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35143486-35229799/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.360668 2 2
2: 6.360668 7.572242 1 1
3: 7.572242 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.360668 2 2
2: 6.360668 7.572242 1 1
3: 7.572242 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 7.572242 Inf 0
2: group 7.572242 Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35143486-35229799/target.tsv
14 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35247560-35265002
Found 3 bigWig files to jointly segment in chr10:35247560-35265002.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35247560-35265002/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.496384 2 2
2: 6.496384 7.661807 1 1
3: 7.661807 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.496384 2 2
2: 6.496384 7.661807 1 1
3: 7.661807 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 7.661807 Inf 0
2: group 7.661807 Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35247560-35265002/target.tsv
15 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35280335-35297255
Found 3 bigWig files to jointly segment in chr10:35280335-35297255.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35280335-35297255/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 5.842937 2 1
2: 5.842937 8.228720 1 1
3: 8.228720 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 5.842937 2 1
2: 5.842937 8.228720 1 1
3: 8.228720 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 8.22872 Inf 0
2: group 8.22872 Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35280335-35297255/target.tsv
16 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35307742-35335186
Found 3 bigWig files to jointly segment in chr10:35307742-35335186.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35307742-35335186/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 5.213443 3 1
2: 5.213443 7.751359 2 0
3: 7.751359 8.693201 1 0
4: 8.693201 Inf 0 1
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 5.213443 3 1
2: 5.213443 7.751359 2 0
3: 7.751359 8.693201 1 0
4: 8.693201 Inf 0 1
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 5.213443 8.693201 0
2: group 5.213443 8.693201 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35307742-35335186/target.tsv
17 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35336932-35365040
Found 3 bigWig files to jointly segment in chr10:35336932-35365040.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35336932-35365040/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 8.699105 2 0
2: 8.699105 9.279567 1 0
3: 9.279567 Inf 0 1
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 8.699105 2 0
2: 8.699105 9.279567 1 0
3: 9.279567 Inf 0 1
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample -Inf 9.279567 0
2: group -Inf 9.279567 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35336932-35365040/target.tsv
18 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35365040-35386779
Found 3 bigWig files to jointly segment in chr10:35365040-35386779.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35365040-35386779/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 4.175646 3 2
2: 4.175646 8.699144 2 1
3: 8.699144 9.645723 1 1
4: 9.645723 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 4.175646 3 2
2: 4.175646 8.699144 2 1
3: 8.699144 9.645723 1 1
4: 9.645723 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 9.645723 Inf 0
2: group 9.645723 Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35365040-35386779/target.tsv
19 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38022113-38042838
Found 3 bigWig files to jointly segment in chr10:38022113-38042838.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38022113-38042838/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.496432 3 0
2: 6.496432 6.623775 2 0
3: 6.623775 8.469735 1 0
4: 8.469735 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.496432 3 0
2: 6.496432 6.623775 2 0
3: 6.623775 8.469735 1 0
4: 8.469735 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample -Inf Inf 0
2: group -Inf Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38022113-38042838/target.tsv
20 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38042838-38079577
Found 3 bigWig files to jointly segment in chr10:38042838-38079577.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38042838-38079577/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 5.398423 3 2
2: 5.398423 5.939923 2 1
3: 5.939923 8.098402 1 1
4: 8.098402 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 5.398423 3 2
2: 5.398423 5.939923 2 1
3: 5.939923 8.098402 1 1
4: 8.098402 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 8.098402 Inf 0
2: group 8.098402 Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38042838-38079577/target.tsv
21 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38086690-38108575
Found 3 bigWig files to jointly segment in chr10:38086690-38108575.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38086690-38108575/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 9.489545 1 1
2: 9.489545 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 9.489545 1 1
2: 9.489545 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 9.489545 Inf 0
2: group 9.489545 Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38086690-38108575/target.tsv
22 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38279689-38305956
Found 3 bigWig files to jointly segment in chr10:38279689-38305956.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38279689-38305956/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.008240 2 0
2: 6.008240 8.603284 1 0
3: 8.603284 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.008240 2 0
2: 6.008240 8.603284 1 0
3: 8.603284 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample -Inf Inf 0
2: group -Inf Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38279689-38305956/target.tsv
23 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38305956-38340772
Found 3 bigWig files to jointly segment in chr10:38305956-38340772.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38305956-38340772/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 9.506248 1 1
2: 9.506248 Inf 0 1
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 9.506248 1 1
2: 9.506248 Inf 0 1
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample -Inf Inf 1
2: group -Inf Inf 1
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38305956-38340772/target.tsv
24 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38362374-38383454
Found 3 bigWig files to jointly segment in chr10:38362374-38383454.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38362374-38383454/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 8.463519 1 1
2: 8.463519 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 8.463519 1 1
2: 8.463519 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 8.463519 Inf 0
2: group 8.463519 Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38362374-38383454/target.tsv
25 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38383454-38395652
Found 3 bigWig files to jointly segment in chr10:38383454-38395652.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38383454-38395652/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.994525 2 1
2: 6.994525 9.211314 1 0
3: 9.211314 Inf 0 1
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.994525 2 1
2: 6.994525 9.211314 1 0
3: 9.211314 Inf 0 1
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 6.994525 9.211314 0
2: group 6.994525 9.211314 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38383454-38395652/target.tsv
26 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38404897-38412091
Found 3 bigWig files to jointly segment in chr10:38404897-38412091.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38404897-38412091/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 9.847892 2 0
2: 9.847892 10.237002 1 0
3: 10.237002 Inf 0 1
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 9.847892 2 0
2: 9.847892 10.237002 1 0
3: 10.237002 Inf 0 1
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample -Inf 10.237 0
2: group -Inf 10.237 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38404897-38412091/target.tsv
27 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38415664-38442230
Found 3 bigWig files to jointly segment in chr10:38415664-38442230.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38415664-38442230/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 5.506820 2 2
2: 5.506820 9.421408 1 1
3: 9.421408 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 5.506820 2 2
2: 5.506820 9.421408 1 1
3: 9.421408 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 9.421408 Inf 0
2: group 9.421408 Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38415664-38442230/target.tsv
28 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38442230-38461531
Found 3 bigWig files to jointly segment in chr10:38442230-38461531.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38442230-38461531/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.296382 2 0
2: 6.296382 8.761751 1 0
3: 8.761751 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.296382 2 0
2: 6.296382 8.761751 1 0
3: 8.761751 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample -Inf Inf 0
2: group -Inf Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38442230-38461531/target.tsv
29 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38625872-38645638
Found 3 bigWig files to jointly segment in chr10:38625872-38645638.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38625872-38645638/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.866948 2 2
2: 6.866948 8.613266 1 2
3: 8.613266 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.866948 2 2
2: 6.866948 8.613266 1 2
3: 8.613266 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 8.613266 Inf 0
2: group 8.613266 Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38625872-38645638/target.tsv
30 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38645638-38651882
Found 3 bigWig files to jointly segment in chr10:38645638-38651882.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38645638-38651882/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 8.582961 2 0
2: 8.582961 9.159934 1 0
3: 9.159934 Inf 0 1
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 8.582961 2 0
2: 8.582961 9.159934 1 0
3: 9.159934 Inf 0 1
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample -Inf 9.159934 0
2: group -Inf 9.159934 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38645638-38651882/target.tsv
31 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38734570-38753822
Found 3 bigWig files to jointly segment in chr10:38734570-38753822.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38734570-38753822/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 4.044041 2 2
2: 4.044041 10.373665 1 1
3: 10.373665 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 4.044041 2 2
2: 4.044041 10.373665 1 1
3: 10.373665 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 10.37367 Inf 0
2: group 10.37367 Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38734570-38753822/target.tsv
32 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38753822-38787223
Found 3 bigWig files to jointly segment in chr10:38753822-38787223.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38753822-38787223/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.498486 3 2
2: 6.498486 6.690433 2 1
3: 6.690433 7.551194 1 1
4: 7.551194 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.498486 3 2
2: 6.498486 6.690433 2 1
3: 6.690433 7.551194 1 1
4: 7.551194 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 7.551194 Inf 0
2: group 7.551194 Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38753822-38787223/target.tsv
33 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38807475-38814105
Found 3 bigWig files to jointly segment in chr10:38807475-38814105.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38807475-38814105/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 4.935151 3 2
2: 4.935151 5.497962 2 2
3: 5.497962 6.700789 1 1
4: 6.700789 Inf 0 0
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 4.935151 3 2
2: 4.935151 5.497962 2 2
3: 5.497962 6.700789 1 1
4: 6.700789 Inf 0 0
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample 6.700789 Inf 0
2: group 6.700789 Inf 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38807475-38814105/target.tsv
34 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38815199-38816357
Found 3 bigWig files to jointly segment in chr10:38815199-38816357.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38815199-38816357/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.454707 2 0
2: 6.454707 7.583618 1 1
3: 7.583618 Inf 0 2
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 6.454707 2 0
2: 6.454707 7.583618 1 1
3: 7.583618 Inf 0 2
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample -Inf 6.454707 0
2: group -Inf 6.454707 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38815199-38816357/target.tsv
35 / 35 labeled joint problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38818375-38818835
Found 3 bigWig files to jointly segment in chr10:38818375-38818835.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38818375-38818835/segmentations.RData
Train error for samples:
min.log.lambda max.log.lambda complexity errors
1: -Inf 5.325159 3 0
2: 5.325159 5.646053 2 1
3: 5.646053 6.141321 1 1
4: 6.141321 Inf 0 2
Train error for groups:
min.log.lambda max.log.lambda complexity errors
1: -Inf 5.325159 3 0
2: 5.325159 5.646053 2 1
3: 5.646053 6.141321 1 1
4: 6.141321 Inf 0 2
Target intervals of minimum error penalty values:
model min.log.lambda max.log.lambda errors
1: sample -Inf 5.325159 0
2: group -Inf 5.325159 0
Writing target intervals to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38818375-38818835/target.tsv
$sample.target
[,1] [,2]
[1,] -Inf Inf
[2,] 7.912072 Inf
[3,] 7.186306 Inf
[4,] 9.014140 Inf
[5,] -Inf Inf
[6,] -Inf Inf
[7,] -Inf 10.981773
[8,] 8.284623 Inf
[9,] -Inf Inf
[10,] 7.957248 Inf
[11,] 7.955444 Inf
[12,] 7.818968 Inf
[13,] 7.572242 Inf
[14,] 7.661807 Inf
[15,] 8.228720 Inf
[16,] 5.213443 8.693201
[17,] -Inf 9.279567
[18,] 9.645723 Inf
[19,] -Inf Inf
[20,] 8.098402 Inf
[21,] 9.489545 Inf
[22,] -Inf Inf
[23,] -Inf Inf
[24,] 8.463519 Inf
[25,] 6.994525 9.211314
[26,] -Inf 10.237002
[27,] 9.421408 Inf
[28,] -Inf Inf
[29,] 8.613266 Inf
[30,] -Inf 9.159934
[31,] 10.373665 Inf
[32,] 7.551194 Inf
[33,] 6.700789 Inf
[34,] -Inf 6.454707
[35,] -Inf 5.325159
$group.target
[,1] [,2]
[1,] -Inf Inf
[2,] 7.912072 Inf
[3,] 7.186306 Inf
[4,] 9.014140 Inf
[5,] -Inf Inf
[6,] -Inf Inf
[7,] -Inf 10.981773
[8,] 8.284623 Inf
[9,] -Inf Inf
[10,] 7.957248 Inf
[11,] 7.955444 Inf
[12,] 7.818968 Inf
[13,] 7.572242 Inf
[14,] 7.661807 Inf
[15,] 8.228720 Inf
[16,] 5.213443 8.693201
[17,] -Inf 9.279567
[18,] 9.645723 Inf
[19,] -Inf Inf
[20,] 8.098402 Inf
[21,] 9.489545 Inf
[22,] -Inf Inf
[23,] -Inf Inf
[24,] 8.463519 Inf
[25,] 6.994525 9.211314
[26,] -Inf 10.237002
[27,] 9.421408 Inf
[28,] -Inf Inf
[29,] 8.613266 Inf
[30,] -Inf 9.159934
[31,] 10.373665 Inf
[32,] 7.551194 Inf
[33,] 6.700789 Inf
[34,] -Inf 6.454707
[35,] -Inf 5.325159
$features
quartile.0% quartile.25% quartile.50% quartile.75% quartile.100%
[1,] 0 4 8 14 47
[2,] 0 5 9 15 48
[3,] 0 4 8 14 51
[4,] 0 6 10 17 45
[5,] 0 4 9 15 43
[6,] 0 4 7 13 46
[7,] 0 7 17 27 67
[8,] 0 2 6 12 59
[9,] 0 2 6 12 40
[10,] 0 3 6 10 30
[11,] 0 4 7 10 33
[12,] 0 3 6 11 39
[13,] 0 1 5 7 37
[14,] 0 0 3 7 28
[15,] 0 6 12 19 59
[16,] 1 23 30 42 89
[17,] 0 19 27 36 79
[18,] 0 5 12 22 57
[19,] 0 1 4 6 31
[20,] 0 4 8 14 42
[21,] 0 5 10 17 47
[22,] 0 3 7 15 86
[23,] 0 20 31 44 119
[24,] 0 2 6 11 33
[25,] 0 19 29 41 92
[26,] 0 7 15 35 102
[27,] 0 3 7 13 44
[28,] 0 2 5 7 32
[29,] 0 2 5 10 39
[30,] 0 17 26 36 69
[31,] 0 1 6 12 64
[32,] 0 2 4 8 34
[33,] 0 3 4 8 25
[34,] 2 5 20 29 47
[35,] 2 17 24 35 48
mean sd mad bases sum loss.0peaks loss.1peak
[1,] 9.694750 7.212769 5.9304 92226 298036 -1.86535445 -1.96161759
[2,] 10.726742 7.818717 7.4130 33375 119335 -2.98710372 -3.33828174
[3,] 10.018894 7.394785 5.9304 72087 240744 -2.28931092 -2.39568240
[4,] 11.354364 7.795251 7.4130 71799 271744 -4.14011159 -4.53669402
[5,] 10.428413 7.160004 5.9304 72960 253619 -2.83430435 -3.06108262
[6,] 8.325926 6.512435 5.9304 346533 961736 -0.31050688 -0.41116200
[7,] 18.216544 12.935371 13.3434 87876 533599 -20.16429431 -21.97628985
[8,] 8.340983 8.838972 5.9304 73332 203887 -0.90977949 -1.11017448
[9,] 7.329405 6.291114 5.9304 136701 333979 0.51319837 0.29338322
[10,] 7.050923 5.732992 5.9304 62271 146356 0.57489581 0.38497034
[11,] 7.252182 5.776503 5.9304 69438 167859 0.44347699 0.27868256
[12,] 7.500695 5.761646 5.9304 209289 523271 0.06320651 0.04041097
[13,] 5.525935 5.270328 4.4478 258939 476960 1.82039859 1.78229055
[14,] 4.931430 4.929398 4.4478 52326 86014 2.04856020 1.94010135
[15,] 13.949054 10.102715 8.8956 50760 236018 -7.32848923 -7.34583449
[16,] 32.617111 14.243551 14.8260 82332 895144 -49.06792761 -49.46014451
[17,] 28.411129 12.838731 11.8608 84324 798580 -40.29489508 -40.92306418
[18,] 14.106629 11.249264 10.3782 65217 306664 -8.07106782 -8.08997886
[19,] 4.688598 4.882652 4.4478 62148 97129 2.23639720 2.15368328
[20,] 8.979947 7.035628 7.4130 110106 329582 -0.88466469 -0.98755665
[21,] 11.380169 8.996320 7.4130 65655 249055 -3.70281154 -4.27974287
[22,] 11.861233 14.401114 7.4130 78801 311559 -4.70271384 -4.75480286
[23,] 33.367762 16.968187 17.7912 104448 1161732 -45.13369927 -45.14880211
[24,] 7.203985 6.132611 4.4478 63240 151860 0.68170996 0.44693373
[25,] 30.680111 16.760187 14.8260 36594 374236 -45.62972579 -47.06706206
[26,] 22.919238 21.468055 14.8260 21582 164881 -22.39529379 -28.18350088
[27,] 8.681623 7.249282 7.4130 79698 230636 -0.63055918 -1.16332453
[28,] 5.719186 5.387409 4.4478 57903 110386 1.87107747 1.43979507
[29,] 6.509714 5.794656 4.4478 59298 128671 1.39326034 1.34579333
[30,] 25.902947 14.345215 14.8260 18732 161738 -29.74219396 -31.65033224
[31,] 9.291087 10.293316 5.9304 57756 178872 -1.55474594 -1.55474594
[32,] 5.651657 5.138968 2.9652 100203 188771 1.19875886 1.15823035
[33,] 5.632579 5.055912 2.9652 19890 37344 0.73751958 0.52006526
[34,] 18.321244 12.705569 16.3086 3474 21216 -17.09033685 -19.22240562
[35,] 26.202174 11.365449 10.3782 1380 12053 -30.76954287 -32.74558082
loss.diff log+1.quartile.0% log+1.quartile.25% log+1.quartile.50%
[1,] 0.09626314 0.0000000 2.4849066 3.806662
[2,] 0.35117802 0.0000000 2.8903718 4.094345
[3,] 0.10637147 0.0000000 2.4849066 3.806662
[4,] 0.39658243 0.0000000 3.1780538 4.276666
[5,] 0.22677828 0.0000000 2.4849066 4.094345
[6,] 0.10065512 0.0000000 2.4849066 3.583519
[7,] 1.81199553 0.0000000 2.6390573 4.499810
[8,] 0.20039499 0.0000000 1.3862944 3.178054
[9,] 0.21981515 0.0000000 1.3862944 3.178054
[10,] 0.18992548 0.0000000 1.7917595 3.178054
[11,] 0.16479443 0.0000000 2.4849066 3.583519
[12,] 0.02279554 0.0000000 1.7917595 3.178054
[13,] 0.03810804 0.0000000 0.6931472 2.890372
[14,] 0.10845885 0.0000000 0.0000000 2.079442
[15,] 0.01734526 0.0000000 3.1780538 4.653960
[16,] 0.39221690 0.6931472 5.9348942 6.440947
[17,] 0.62816911 0.0000000 5.2040067 6.234411
[18,] 0.01891104 0.0000000 2.8903718 4.653960
[19,] 0.08271391 0.0000000 0.6931472 2.484907
[20,] 0.10289196 0.0000000 2.4849066 3.871201
[21,] 0.57693133 0.0000000 2.8903718 4.317488
[22,] 0.05208901 0.0000000 2.0794415 3.583519
[23,] 0.01510284 0.0000000 5.3752784 6.553933
[24,] 0.23477622 0.0000000 1.3862944 3.295837
[25,] 1.43733627 0.0000000 5.2882670 6.436150
[26,] 5.78820709 0.0000000 3.4011974 5.298317
[27,] 0.53276535 0.0000000 2.0794415 3.583519
[28,] 0.43128240 0.0000000 1.3862944 2.890372
[29,] 0.04746701 0.0000000 1.3862944 2.890372
[30,] 1.90813828 0.0000000 5.2882670 6.129050
[31,] 0.00000000 0.0000000 0.6931472 3.295837
[32,] 0.04052851 0.0000000 1.3862944 2.197225
[33,] 0.21745432 0.0000000 1.7917595 2.197225
[34,] 2.13206876 1.3862944 2.3025851 5.375278
[35,] 1.97603796 1.3862944 4.9698133 6.003887
log+1.quartile.75% log+1.quartile.100% log+1.mean log+1.sd log+1.mad
[1,] 5.164786 8.407378 4.273376 3.656117 3.196169
[2,] 5.298317 8.456168 4.503465 3.811773 3.664419
[3,] 5.164786 8.590815 4.358410 3.714723 3.196169
[4,] 5.598422 8.273847 4.617767 3.788781 3.664419
[5,] 5.347108 8.148446 4.445471 3.636348 3.196169
[6,] 5.010635 8.362642 3.951074 3.453452 3.196169
[7,] 5.799093 8.843615 4.876811 4.380689 4.250312
[8,] 4.653960 8.476371 3.851387 3.869249 3.196169
[9,] 4.787492 7.976595 3.662787 3.372775 3.196169
[10,] 4.276666 7.167038 3.556149 3.187727 3.196169
[11,] 4.276666 7.408531 3.609737 3.188972 3.196169
[12,] 4.499810 7.827241 3.646549 3.185430 3.196169
[13,] 3.583519 7.745003 3.116311 3.037717 2.727919
[14,] 3.583519 6.984716 2.907053 2.909207 2.727919
[15,] 5.575949 8.856234 4.980311 4.281873 3.982075
[16,] 7.677864 9.942227 6.873375 5.053666 5.202546
[17,] 7.218910 9.554781 6.467233 4.783292 4.540436
[18,] 6.173786 8.796641 5.024394 4.479332 4.222780
[19,] 3.295837 7.234177 2.796224 2.895248 2.727919
[20,] 5.192957 8.119696 4.133493 3.614480 3.664419
[21,] 5.634790 8.328451 4.639138 4.100599 3.664419
[22,] 5.347108 9.897067 4.685902 4.993206 3.664419
[23,] 7.803027 10.675492 6.922368 5.402785 5.605564
[24,] 4.605170 7.447751 3.668398 3.333481 2.727919
[25,] 7.544332 10.041509 6.730991 5.369043 4.975002
[26,] 7.333023 10.268547 6.262957 5.963022 5.202546
[27,] 5.010635 8.201934 4.066371 3.667402 3.664419
[28,] 3.583519 7.367709 3.194607 3.083876 2.727919
[29,] 4.382027 7.827241 3.456730 3.219865 2.727919
[30,] 7.218910 9.211340 6.359964 5.008571 4.975002
[31,] 4.653960 9.012865 4.147226 4.314313 3.196169
[32,] 3.688879 7.521859 3.037889 2.968945 1.818613
[33,] 3.178054 6.579251 2.868407 2.854738 1.818613
[34,] 6.416732 7.896553 5.302248 4.650080 5.137314
[35,] 7.375256 8.313852 6.463214 4.669130 4.299730
log+1.bases log+1.sum log+1.loss.0peaks log+1.loss.1peak log+1.loss.diff
[1,] 31.00025 34.42662 NaN NaN 0.09389223
[2,] 27.95112 31.67830 NaN NaN 0.31985964
[3,] 30.26117 33.80374 NaN NaN 0.10362419
[4,] 30.24917 34.11794 NaN NaN 0.35089844
[5,] 30.29729 33.95176 NaN NaN 0.21651419
[6,] 34.97139 37.97087 -1.711912516 -2.00370646 0.09868831
[7,] 30.85531 34.81515 NaN NaN 1.06934295
[8,] 30.31254 33.12321 NaN NaN 0.18768044
[9,] 32.18088 34.76862 0.023542507 -0.20810716 0.21026033
[10,] 29.82206 32.24090 -0.005090611 -0.40040193 0.18223513
[11,] 30.14886 32.64571 -1.269926301 NaN 0.15795596
[12,] 33.45862 35.98491 NaN NaN 0.02263795
[13,] 34.09724 35.88851 1.406595579 1.38170323 0.03784502
[14,] 29.30008 30.76663 1.555258201 1.48183872 0.10297062
[15,] 29.20893 33.48137 NaN NaN 0.01719654
[16,] 30.65982 37.11662 NaN NaN 0.36474406
[17,] 30.73154 36.70429 NaN NaN 0.54421531
[18,] 29.96073 34.30139 NaN NaN 0.01873445
[19,] 29.81613 31.08043 1.654206984 1.60209643 0.08102393
[20,] 31.53184 34.78406 -1.772396109 -1.92044413 0.09985495
[21,] 29.98081 33.87695 NaN NaN 0.46859486
[22,] 30.52832 34.46548 NaN NaN 0.05077773
[23,] 31.37358 37.87679 NaN NaN 0.01498993
[24,] 29.86838 32.48821 0.590662574 0.40200949 0.21795666
[25,] 28.22733 34.51167 NaN NaN 1.11593429
[26,] 26.64342 32.46687 NaN NaN 2.71866471
[27,] 30.56228 33.72816 -0.950488862 -2.40166685 0.46567239
[28,] 29.60389 31.52493 1.448172470 1.17524813 0.38917654
[29,] 29.67531 31.99003 1.131376632 1.09829273 0.04687425
[30,] 26.21861 32.10556 NaN NaN 1.31684163
[31,] 29.59627 32.83515 NaN NaN 0.00000000
[32,] 31.24911 32.76721 0.920272091 0.88032499 0.03992116
[33,] 26.39853 27.28543 0.298948998 -0.08317582 0.20506170
[34,] 21.16594 25.67234 NaN NaN 1.39594979
[35,] 18.40019 24.42362 NaN NaN 1.49512444
log.quartile.0% log.quartile.25% log.quartile.50% log.quartile.75%
[1,] -Inf 0.6931472 2.7725887 4.564348
[2,] -Inf 1.3862944 3.1780538 4.718499
[3,] -Inf 0.6931472 2.7725887 4.564348
[4,] -Inf 1.7917595 3.4011974 5.075174
[5,] -Inf 0.6931472 3.1780538 4.787492
[6,] -Inf 0.6931472 2.4849066 4.382027
[7,] -Inf -Inf 3.3322045 5.123964
[8,] -Inf -Inf 1.7917595 3.871201
[9,] -Inf -Inf 1.7917595 4.094345
[10,] -Inf -Inf 1.7917595 3.401197
[11,] -Inf 0.6931472 2.4849066 3.401197
[12,] -Inf -Inf 1.7917595 3.688879
[13,] -Inf -Inf 1.3862944 2.484907
[14,] -Inf -Inf 0.0000000 2.484907
[15,] -Inf 1.7917595 3.8712010 4.941642
[16,] -Inf 5.3375381 5.8861040 7.383989
[17,] -Inf 4.2766661 5.6629605 6.866933
[18,] -Inf 1.3862944 3.8712010 5.730100
[19,] -Inf -Inf 0.6931472 2.079442
[20,] -Inf 0.6931472 2.8903718 4.605170
[21,] -Inf 1.3862944 3.4657359 5.123964
[22,] -Inf 0.0000000 2.4849066 4.787492
[23,] -Inf 4.4773368 6.0112672 7.517521
[24,] -Inf -Inf 2.0794415 3.871201
[25,] -Inf 4.3820266 5.8861040 7.215240
[26,] -Inf 2.0794415 4.7184989 7.021084
[27,] -Inf 0.0000000 2.4849066 4.382027
[28,] -Inf -Inf 1.3862944 2.484907
[29,] -Inf -Inf 1.3862944 3.583519
[30,] -Inf 4.6051702 5.5451774 6.866933
[31,] -Inf -Inf 2.0794415 3.871201
[32,] -Inf -Inf -Inf 2.484907
[33,] -Inf -Inf -Inf -Inf
[34,] -Inf -Inf 4.4773368 5.863631
[35,] -Inf 4.0073332 5.4116461 7.080026
log.quartile.100% log.mean log.sd log.mad log.bases log.sum
[1,] 8.217439 3.4264335 2.593843 1.874539 31.00016 34.42659
[2,] 8.268732 3.7273676 2.805342 2.567686 27.95085 31.67822
[3,] 8.409162 3.5426500 2.680445 1.874539 30.26105 33.80370
[4,] 8.074338 3.8688614 2.765163 2.567686 30.24904 34.11790
[5,] 7.940228 3.6545642 2.563658 1.874539 30.29716 33.95173
[6,] 8.170751 2.9994972 2.307320 1.874539 34.97136 37.97086
[7,] 8.651724 3.9599038 3.379804 3.127302 30.85521 34.81511
[8,] 8.258681 2.8107376 2.789620 1.874539 30.31242 33.12316
[9,] 7.757906 2.5877741 2.181707 1.874539 32.18082 34.76859
[10,] 6.875232 2.4189149 1.902132 1.874539 29.82192 32.24083
[11,] 7.138867 2.4969183 1.894459 1.874539 30.14873 32.64565
[12,] 7.590852 2.5263158 1.888364 1.874539 33.45858 35.98489
[13,] 7.506592 1.7912879 1.679457 1.181392 34.09721 35.88849
[14,] 6.674561 1.4666130 1.472644 1.181392 29.29991 30.76652
[15,] 8.679312 4.2725665 3.392029 2.973151 29.20875 33.48132
[16,] 9.814875 6.4568953 4.377396 4.582589 30.65971 37.11660
[17,] 9.407304 5.9728373 4.020495 3.666299 30.73143 36.70427
[18,] 8.620472 4.3407688 3.635039 3.260833 29.96059 34.30136
[19,] 6.946976 1.2643444 1.453551 1.181392 29.81598 31.08033
[20,] 7.912057 3.2522712 2.540453 2.567686 31.53176 34.78403
[21,] 8.127995 3.8962388 3.191849 2.567686 29.98067 33.87691
[22,] 9.772809 3.9372418 4.267619 2.567686 30.52821 34.46545
[23,] 10.573161 6.5032784 4.781860 5.052593 31.37350 37.87678
[24,] 7.185387 2.6199096 2.130949 1.181392 29.86824 32.48815
[25,] 9.917390 6.2845446 4.723221 4.177124 28.22708 34.51163
[26,] 10.149722 5.8237915 5.432365 4.582589 26.64301 32.46680
[27,] 7.996317 3.1659569 2.609467 2.567686 30.56216 33.72812
[28,] 7.098376 1.9211159 1.755191 1.181392 29.60374 31.52485
[29,] 7.590852 2.3148032 1.959451 1.181392 29.67516 31.98996
[30,] 9.047821 5.8873446 4.288323 4.177124 26.21813 32.10547
[31,] 8.843615 3.2389846 3.441669 1.874539 29.59611 32.83510
[32,] 7.265430 1.5181250 1.549150 -Inf 31.24902 32.76715
[33,] 6.204558 0.8868137 1.246926 -Inf 26.39808 27.28489
[34,] 7.613325 4.5081297 3.786850 4.359446 21.16335 25.67148
[35,] 8.105308 6.0289009 3.948030 3.378616 18.39368 24.42258
log.loss.0peaks log.loss.1peak log.loss.diff log.log.quartile.0%
[1,] NaN NaN -Inf NaN
[2,] NaN NaN -Inf NaN
[3,] NaN NaN -Inf NaN
[4,] NaN NaN -7.899106 NaN
[5,] NaN NaN -8.153269 NaN
[6,] NaN NaN -10.455661 NaN
[7,] NaN NaN -6.632412 NaN
[8,] NaN NaN -Inf NaN
[9,] NaN NaN -8.213488 NaN
[10,] NaN NaN -8.830133 NaN
[11,] NaN NaN -9.586071 NaN
[12,] NaN NaN -Inf NaN
[13,] -1.6218832 -1.698162 -13.243105 NaN
[14,] -1.1844372 -1.412362 -Inf NaN
[15,] NaN NaN -Inf NaN
[16,] NaN NaN -6.370847 NaN
[17,] NaN NaN -Inf NaN
[18,] NaN NaN -Inf NaN
[19,] -0.9753849 -1.118523 -Inf NaN
[20,] NaN NaN -Inf NaN
[21,] NaN NaN -Inf NaN
[22,] NaN NaN -Inf NaN
[23,] NaN NaN -Inf NaN
[24,] -6.2909654 -7.306676 -Inf NaN
[25,] NaN NaN -3.019463 NaN
[26,] NaN NaN -1.592175 NaN
[27,] NaN NaN -6.994273 NaN
[28,] -1.4553204 -2.209292 -6.771139 NaN
[29,] -2.4512759 -2.570642 -Inf NaN
[30,] NaN NaN -3.035590 NaN
[31,] NaN NaN -Inf NaN
[32,] NaN NaN -Inf NaN
[33,] NaN NaN -Inf NaN
[34,] NaN NaN -Inf NaN
[35,] NaN NaN -1.409085 NaN
log.log.quartile.25% log.log.quartile.50% log.log.quartile.75%
[1,] -Inf -0.40639158 1.2364666
[2,] -Inf 0.05416917 1.3189983
[3,] -Inf -0.40639158 1.2364666
[4,] -Inf 0.20341990 1.5346186
[5,] -Inf 0.05416917 1.3857173
[6,] -Inf -0.63897801 1.1291535
[7,] NaN -Inf 1.0734654
[8,] NaN -Inf 0.5433194
[9,] NaN -Inf 0.8965671
[10,] NaN -Inf 0.2034199
[11,] -Inf -0.63897801 0.2034199
[12,] NaN -Inf 0.4360063
[13,] NaN -Inf -0.6389780
[14,] NaN -Inf -0.6389780
[15,] -Inf 0.54331942 1.1332493
[16,] 1.3075252 1.52890465 2.5890936
[17,] -Inf 1.44046353 2.3340581
[18,] -Inf 0.54331942 1.8669555
[19,] NaN -Inf -1.0995388
[20,] -Inf -0.17841727 1.2784043
[21,] -Inf 0.28675560 1.5755622
[22,] -Inf -0.63897801 1.3857173
[23,] -Inf 1.58513370 2.6384532
[24,] NaN -1.09953876 0.7473163
[25,] -Inf 1.53995107 2.4652345
[26,] -Inf 1.31899833 2.4660882
[27,] -Inf -0.63897801 1.1291535
[28,] NaN -Inf -0.6389780
[29,] NaN -Inf 0.5147299
[30,] 0.9434045 1.38536789 2.3340581
[31,] NaN -1.09953876 0.5433194
[32,] NaN NaN -Inf
[33,] NaN NaN NaN
[34,] NaN -Inf 1.5278599
[35,] -Inf 1.33600823 2.5191746
log.log.quartile.100% log.log.mean log.log.sd log.log.mad log.log.bases
[1,] 3.018086 0.33329650 -0.48573593 -1.78046739 7.006140
[2,] 3.035356 0.59648922 -0.27159518 -0.76517789 6.695506
[3,] 3.080155 0.45066898 -0.36790177 -1.78046739 6.933747
[4,] 2.963796 0.69740658 -0.34778537 -0.76517789 6.932557
[5,] 2.913559 0.54197412 -0.52875944 -1.78046739 6.937325
[6,] 3.003132 -0.05744577 -0.81623231 -1.78046739 7.367752
[7,] 3.106803 0.01755234 -0.36969179 -1.01381202 6.992080
[8,] 2.960222 -0.48036405 -0.69356631 -1.78046739 6.938836
[9,] 2.848403 -0.56534872 -1.02376419 -1.78046739 7.118275
[10,] 2.481282 -0.86917439 -1.46161459 -1.78046739 6.889894
[11,] 2.591649 -0.73726514 -1.53445770 -1.78046739 6.922592
[12,] 2.770009 -0.85372032 -1.57417481 -1.78046739 7.235088
[13,] 2.746393 -1.67072718 -1.77527878 -2.79575688 7.291810
[14,] 2.393886 -2.23853308 -2.20308444 -2.79575688 6.836916
[15,] 3.151011 0.83597351 0.11017834 -0.44815644 6.827569
[16,] 3.515695 2.07860751 0.96492096 1.17852600 6.973011
[17,] 3.379246 1.75795210 0.60935872 0.04513789 6.980021
[18,] 3.139611 0.93847350 0.28950123 -0.27188357 6.903812
[19,] 2.508071 -3.23686548 -2.20965973 -2.79575688 6.889297
[20,] 2.908589 0.20809671 -0.52343363 -0.76517789 7.057149
[21,] 2.973522 0.71120606 0.09368266 -0.76517789 6.905822
[22,] 3.514125 0.68698917 0.76307622 -0.76517789 6.960116
[23,] 3.736362 2.07890954 1.18756817 1.44190601 7.042054
[24,] 2.618859 -0.41658109 -1.05698132 -2.79575688 6.894550
[25,] 3.545697 1.95713005 1.07786772 0.33950938 6.725009
[26,] 3.607498 1.89510242 1.55759453 1.17852600 6.551743
[27,] 2.932205 0.14001826 -0.47273344 -0.76517789 6.963451
[28,] 2.583215 -1.37678251 -1.61145616 -2.79575688 6.867865
[29,] 2.770009 -0.79253714 -1.31459144 -2.79575688 6.875094
[30,] 3.263331 1.81289388 0.77572121 0.33950938 6.503516
[31,] 3.204429 0.07032852 0.21328232 -1.78046739 6.867092
[32,] 2.650563 NaN -2.32073836 NaN 7.030128
[33,] 2.137671 NaN NaN NaN 6.524037
[34,] 2.664774 0.23438949 0.06348504 0.42661651 5.860976
[35,] 2.949763 1.94888310 0.79405775 -0.13113498 5.440184
log.log.sum log.log.loss.0peaks log.log.loss.1peak log.log.loss.diff
[1,] 7.319977 NaN NaN NaN
[2,] 7.070247 NaN NaN NaN
[3,] 7.265314 NaN NaN NaN
[4,] 7.292730 NaN NaN NaN
[5,] 7.278367 NaN NaN NaN
[6,] 7.614245 NaN NaN NaN
[7,] 7.344312 NaN NaN NaN
[8,] 7.202843 NaN NaN NaN
[9,] 7.349635 NaN NaN NaN
[10,] 7.122643 NaN NaN NaN
[11,] 7.160107 NaN NaN NaN
[12,] 7.451938 NaN NaN NaN
[13,] 7.445124 NaN NaN NaN
[14,] 6.983220 NaN NaN NaN
[15,] 7.234095 NaN NaN NaN
[16,] 7.540810 NaN NaN NaN
[17,] 7.506466 NaN NaN NaN
[18,] 7.307276 NaN NaN NaN
[19,] 7.013166 NaN NaN NaN
[20,] 7.351356 NaN NaN NaN
[21,] 7.271493 NaN NaN NaN
[22,] 7.322533 NaN NaN NaN
[23,] 7.601446 NaN NaN NaN
[24,] 7.146721 NaN NaN NaN
[25,] 7.321270 NaN NaN NaN
[26,] 7.142111 NaN NaN NaN
[27,] 7.258980 NaN NaN NaN
[28,] 7.056356 NaN NaN NaN
[29,] 7.100350 NaN NaN NaN
[30,] 7.105308 NaN NaN NaN
[31,] 7.177307 NaN NaN NaN
[32,] 7.168673 NaN NaN NaN
[33,] 6.606525 NaN NaN NaN
[34,] 6.423641 NaN NaN NaN
[35,] 6.282741 NaN NaN NaN
Warning message:
In require_bit64() :
Some columns are type 'integer64' but package bit64 is not installed. Those columns will print as strange looking floating point data. There is no need to reload the data. Simply install.packages('bit64') to obtain the integer64 print method and print the data again.
1 / 1 problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835
Skipping since jointTargets.rds exists.
Training sample model using 27 finite targets.
Train errors:
status targets
1: correct 27
Training group model using 27 finite targets.
Train errors:
status targets
1: correct 27
Saved /home/tdhock/PeakSegPipeline-test/input/joint.model.RData
Saved 1 jobProblems.bed files to /home/tdhock/PeakSegPipeline-test/input/jobs
1 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33041006-33091742
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33041006-33091742/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33041006-33091742/peakInfo.rds
2 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33097057-33108182
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33097057-33108182/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33097057-33108182/peakInfo.rds
3 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33108182-33132211
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33108182-33132211/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33108182-33132211/peakInfo.rds
4 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33132211-33156144
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33132211-33156144/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33132211-33156144/peakInfo.rds
5 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33156144-33180464
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33156144-33180464/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33156144-33180464/peakInfo.rds
6 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33180464-33190124
Found 3 bigWig files to jointly segment in chr10:33180464-33190124.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33180464-33190124/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33180464-33190124/peakInfo.rds
7 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33190124-33206237
Found 3 bigWig files to jointly segment in chr10:33190124-33206237.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33190124-33206237/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33190124-33206237/peakInfo.rds
8 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33206237-33224554
Found 3 bigWig files to jointly segment in chr10:33206237-33224554.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33206237-33224554/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33206237-33224554/peakInfo.rds
9 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33224554-33252179
Found 3 bigWig files to jointly segment in chr10:33224554-33252179.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33224554-33252179/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33224554-33252179/peakInfo.rds
10 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33252179-33285280
Found 3 bigWig files to jointly segment in chr10:33252179-33285280.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33252179-33285280/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33252179-33285280/peakInfo.rds
11 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33285280-33299185
Found 3 bigWig files to jointly segment in chr10:33285280-33299185.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33285280-33299185/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33285280-33299185/peakInfo.rds
12 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33342875-33458386
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33342875-33458386/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33342875-33458386/peakInfo.rds
13 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33458386-33487678
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33458386-33487678/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33458386-33487678/peakInfo.rds
14 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33528532-33541783
Found 3 bigWig files to jointly segment in chr10:33528532-33541783.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33528532-33541783/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33528532-33541783/peakInfo.rds
15 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33541783-33555743
Found 3 bigWig files to jointly segment in chr10:33541783-33555743.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33541783-33555743/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33541783-33555743/peakInfo.rds
16 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33618486-33642930
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33618486-33642930/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33618486-33642930/peakInfo.rds
17 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33767266-33812833
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33767266-33812833/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33767266-33812833/peakInfo.rds
18 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33849609-33870366
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33849609-33870366/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33849609-33870366/peakInfo.rds
19 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33871963-33895109
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33871963-33895109/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33871963-33895109/peakInfo.rds
20 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33895109-33964872
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33895109-33964872/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33895109-33964872/peakInfo.rds
21 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33977168-34099884
Found 3 bigWig files to jointly segment in chr10:33977168-34099884.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33977168-34099884/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:33977168-34099884/peakInfo.rds
22 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34099884-34110749
Found 3 bigWig files to jointly segment in chr10:34099884-34110749.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34099884-34110749/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34099884-34110749/peakInfo.rds
23 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34390457-34411424
Found 3 bigWig files to jointly segment in chr10:34390457-34411424.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34390457-34411424/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34390457-34411424/peakInfo.rds
24 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34479049-34521268
Found 3 bigWig files to jointly segment in chr10:34479049-34521268.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34479049-34521268/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34479049-34521268/peakInfo.rds
25 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34543031-34559904
Found 3 bigWig files to jointly segment in chr10:34543031-34559904.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34543031-34559904/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34543031-34559904/peakInfo.rds
26 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34559904-34569983
Found 3 bigWig files to jointly segment in chr10:34559904-34569983.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34559904-34569983/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34559904-34569983/peakInfo.rds
27 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34569983-34583039
Found 3 bigWig files to jointly segment in chr10:34569983-34583039.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34569983-34583039/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34569983-34583039/peakInfo.rds
28 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34583039-34598670
Found 3 bigWig files to jointly segment in chr10:34583039-34598670.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34583039-34598670/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34583039-34598670/peakInfo.rds
29 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34598670-34608879
Found 3 bigWig files to jointly segment in chr10:34598670-34608879.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34598670-34608879/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34598670-34608879/peakInfo.rds
30 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34608879-34633301
Found 3 bigWig files to jointly segment in chr10:34608879-34633301.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34608879-34633301/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34608879-34633301/peakInfo.rds
31 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34638093-34655100
Found 3 bigWig files to jointly segment in chr10:34638093-34655100.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34638093-34655100/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34638093-34655100/peakInfo.rds
32 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34668036-34691695
Found 3 bigWig files to jointly segment in chr10:34668036-34691695.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34668036-34691695/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34668036-34691695/peakInfo.rds
33 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34691695-34711507
Found 3 bigWig files to jointly segment in chr10:34691695-34711507.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34691695-34711507/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34691695-34711507/peakInfo.rds
34 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34880321-34909692
Found 3 bigWig files to jointly segment in chr10:34880321-34909692.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34880321-34909692/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34880321-34909692/peakInfo.rds
35 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34909692-34928762
Found 3 bigWig files to jointly segment in chr10:34909692-34928762.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34909692-34928762/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34909692-34928762/peakInfo.rds
36 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34928762-34941807
Found 3 bigWig files to jointly segment in chr10:34928762-34941807.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34928762-34941807/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34928762-34941807/peakInfo.rds
37 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34964004-34978326
Found 3 bigWig files to jointly segment in chr10:34964004-34978326.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34964004-34978326/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34964004-34978326/peakInfo.rds
38 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34978326-34988848
Found 3 bigWig files to jointly segment in chr10:34978326-34988848.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34978326-34988848/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34978326-34988848/peakInfo.rds
39 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34988848-34999561
Found 3 bigWig files to jointly segment in chr10:34988848-34999561.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34988848-34999561/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34988848-34999561/peakInfo.rds
40 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34999561-35043156
Found 3 bigWig files to jointly segment in chr10:34999561-35043156.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34999561-35043156/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:34999561-35043156/peakInfo.rds
41 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35064706-35081094
Found 3 bigWig files to jointly segment in chr10:35064706-35081094.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35064706-35081094/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35064706-35081094/peakInfo.rds
42 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35081094-35093207
Found 3 bigWig files to jointly segment in chr10:35081094-35093207.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35081094-35093207/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35081094-35093207/peakInfo.rds
43 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35096618-35118705
Found 3 bigWig files to jointly segment in chr10:35096618-35118705.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35096618-35118705/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35096618-35118705/peakInfo.rds
44 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35118705-35143486
Found 3 bigWig files to jointly segment in chr10:35118705-35143486.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35118705-35143486/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35118705-35143486/peakInfo.rds
45 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35143486-35229799
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35143486-35229799/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35143486-35229799/peakInfo.rds
46 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35247560-35265002
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35247560-35265002/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35247560-35265002/peakInfo.rds
47 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35280335-35297255
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35280335-35297255/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35280335-35297255/peakInfo.rds
48 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35307742-35335186
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35307742-35335186/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35307742-35335186/peakInfo.rds
49 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35336932-35365040
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35336932-35365040/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35336932-35365040/peakInfo.rds
50 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35365040-35386779
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35365040-35386779/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35365040-35386779/peakInfo.rds
51 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35404710-35416229
Found 3 bigWig files to jointly segment in chr10:35404710-35416229.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35404710-35416229/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35404710-35416229/peakInfo.rds
52 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35416229-35431283
Found 3 bigWig files to jointly segment in chr10:35416229-35431283.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35416229-35431283/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35416229-35431283/peakInfo.rds
53 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35432704-35443835
Found 3 bigWig files to jointly segment in chr10:35432704-35443835.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35432704-35443835/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35432704-35443835/peakInfo.rds
54 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35443835-35459427
Found 3 bigWig files to jointly segment in chr10:35443835-35459427.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35443835-35459427/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35443835-35459427/peakInfo.rds
55 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35461118-35473724
Found 3 bigWig files to jointly segment in chr10:35461118-35473724.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35461118-35473724/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35461118-35473724/peakInfo.rds
56 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35473724-35484716
Found 3 bigWig files to jointly segment in chr10:35473724-35484716.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35473724-35484716/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35473724-35484716/peakInfo.rds
57 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35484716-35493813
Found 3 bigWig files to jointly segment in chr10:35484716-35493813.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35484716-35493813/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35484716-35493813/peakInfo.rds
58 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35493813-35512116
Found 3 bigWig files to jointly segment in chr10:35493813-35512116.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35493813-35512116/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35493813-35512116/peakInfo.rds
59 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35526344-35595780
Found 3 bigWig files to jointly segment in chr10:35526344-35595780.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35526344-35595780/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35526344-35595780/peakInfo.rds
60 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35595780-35621405
Found 3 bigWig files to jointly segment in chr10:35595780-35621405.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35595780-35621405/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35595780-35621405/peakInfo.rds
61 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35621405-35642776
Found 3 bigWig files to jointly segment in chr10:35621405-35642776.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35621405-35642776/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35621405-35642776/peakInfo.rds
62 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35664165-35676121
Found 3 bigWig files to jointly segment in chr10:35664165-35676121.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35664165-35676121/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35664165-35676121/peakInfo.rds
63 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35676121-35689899
Found 3 bigWig files to jointly segment in chr10:35676121-35689899.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35676121-35689899/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35676121-35689899/peakInfo.rds
64 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35707174-35720564
Found 3 bigWig files to jointly segment in chr10:35707174-35720564.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35707174-35720564/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35707174-35720564/peakInfo.rds
65 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35720564-35739041
Found 3 bigWig files to jointly segment in chr10:35720564-35739041.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35720564-35739041/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35720564-35739041/peakInfo.rds
66 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35739041-35762849
Found 3 bigWig files to jointly segment in chr10:35739041-35762849.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35739041-35762849/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35739041-35762849/peakInfo.rds
67 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35764095-35784798
Found 3 bigWig files to jointly segment in chr10:35764095-35784798.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35764095-35784798/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35764095-35784798/peakInfo.rds
68 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35784798-35798804
Found 3 bigWig files to jointly segment in chr10:35784798-35798804.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35784798-35798804/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35784798-35798804/peakInfo.rds
69 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35812583-35831786
Found 3 bigWig files to jointly segment in chr10:35812583-35831786.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35812583-35831786/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35812583-35831786/peakInfo.rds
70 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35833721-35853322
Found 3 bigWig files to jointly segment in chr10:35833721-35853322.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35833721-35853322/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35833721-35853322/peakInfo.rds
71 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35853322-35875392
Found 3 bigWig files to jointly segment in chr10:35853322-35875392.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35853322-35875392/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35853322-35875392/peakInfo.rds
72 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35903062-35966174
Found 3 bigWig files to jointly segment in chr10:35903062-35966174.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35903062-35966174/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35903062-35966174/peakInfo.rds
73 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35966174-35996789
Found 3 bigWig files to jointly segment in chr10:35966174-35996789.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35966174-35996789/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35966174-35996789/peakInfo.rds
74 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35996789-36019776
Found 3 bigWig files to jointly segment in chr10:35996789-36019776.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35996789-36019776/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:35996789-36019776/peakInfo.rds
75 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:36019776-36117051
Found 3 bigWig files to jointly segment in chr10:36019776-36117051.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:36019776-36117051/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:36019776-36117051/peakInfo.rds
76 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:36240342-36257490
Found 3 bigWig files to jointly segment in chr10:36240342-36257490.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:36240342-36257490/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:36240342-36257490/peakInfo.rds
77 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:36703558-36725719
Found 3 bigWig files to jointly segment in chr10:36703558-36725719.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:36703558-36725719/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:36703558-36725719/peakInfo.rds
78 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:36898384-36923345
Found 3 bigWig files to jointly segment in chr10:36898384-36923345.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:36898384-36923345/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:36898384-36923345/peakInfo.rds
79 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:36923345-36948347
Found 3 bigWig files to jointly segment in chr10:36923345-36948347.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:36923345-36948347/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:36923345-36948347/peakInfo.rds
80 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:36948347-36998494
Found 3 bigWig files to jointly segment in chr10:36948347-36998494.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:36948347-36998494/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:36948347-36998494/peakInfo.rds
81 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37050445-37106279
Found 3 bigWig files to jointly segment in chr10:37050445-37106279.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37050445-37106279/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37050445-37106279/peakInfo.rds
82 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37106279-37168978
Found 3 bigWig files to jointly segment in chr10:37106279-37168978.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37106279-37168978/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37106279-37168978/peakInfo.rds
83 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37168978-37220653
Found 3 bigWig files to jointly segment in chr10:37168978-37220653.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37168978-37220653/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37168978-37220653/peakInfo.rds
84 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37228810-37275007
Found 3 bigWig files to jointly segment in chr10:37228810-37275007.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37228810-37275007/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37228810-37275007/peakInfo.rds
85 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37707957-37773753
Found 3 bigWig files to jointly segment in chr10:37707957-37773753.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37707957-37773753/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37707957-37773753/peakInfo.rds
86 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37773753-37808764
Found 3 bigWig files to jointly segment in chr10:37773753-37808764.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37773753-37808764/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37773753-37808764/peakInfo.rds
87 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37808764-37866788
Found 3 bigWig files to jointly segment in chr10:37808764-37866788.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37808764-37866788/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37808764-37866788/peakInfo.rds
88 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37866788-37923785
Found 3 bigWig files to jointly segment in chr10:37866788-37923785.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37866788-37923785/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37866788-37923785/peakInfo.rds
89 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37962662-37989885
Found 3 bigWig files to jointly segment in chr10:37962662-37989885.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37962662-37989885/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37962662-37989885/peakInfo.rds
90 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37989885-38022113
Found 3 bigWig files to jointly segment in chr10:37989885-38022113.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37989885-38022113/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:37989885-38022113/peakInfo.rds
91 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38022113-38042838
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38022113-38042838/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38022113-38042838/peakInfo.rds
92 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38042838-38079577
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38042838-38079577/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38042838-38079577/peakInfo.rds
93 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38086690-38108575
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38086690-38108575/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38086690-38108575/peakInfo.rds
94 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38116115-38146639
Found 3 bigWig files to jointly segment in chr10:38116115-38146639.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38116115-38146639/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38116115-38146639/peakInfo.rds
95 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38146639-38175799
Found 3 bigWig files to jointly segment in chr10:38146639-38175799.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38146639-38175799/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38146639-38175799/peakInfo.rds
96 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38181113-38233108
Found 3 bigWig files to jointly segment in chr10:38181113-38233108.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38181113-38233108/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38181113-38233108/peakInfo.rds
97 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38233108-38250623
Found 3 bigWig files to jointly segment in chr10:38233108-38250623.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38233108-38250623/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38233108-38250623/peakInfo.rds
98 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38250623-38269748
Found 3 bigWig files to jointly segment in chr10:38250623-38269748.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38250623-38269748/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38250623-38269748/peakInfo.rds
99 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38279689-38305956
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38279689-38305956/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38279689-38305956/peakInfo.rds
100 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38305956-38340772
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38305956-38340772/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38305956-38340772/peakInfo.rds
101 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38362374-38383454
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38362374-38383454/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38362374-38383454/peakInfo.rds
102 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38383454-38395652
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38383454-38395652/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38383454-38395652/peakInfo.rds
103 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38404897-38412091
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38404897-38412091/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38404897-38412091/peakInfo.rds
104 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38415664-38442230
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38415664-38442230/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38415664-38442230/peakInfo.rds
105 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38442230-38461531
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38442230-38461531/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38442230-38461531/peakInfo.rds
106 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38461531-38493519
Found 3 bigWig files to jointly segment in chr10:38461531-38493519.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38461531-38493519/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38461531-38493519/peakInfo.rds
107 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38625872-38645638
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38625872-38645638/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38625872-38645638/peakInfo.rds
108 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38645638-38651882
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38645638-38651882/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38645638-38651882/peakInfo.rds
109 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38651882-38672038
Found 3 bigWig files to jointly segment in chr10:38651882-38672038.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38651882-38672038/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38651882-38672038/peakInfo.rds
110 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38673060-38699577
Found 3 bigWig files to jointly segment in chr10:38673060-38699577.
Writing segmentation and features to /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38673060-38699577/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38673060-38699577/peakInfo.rds
111 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38734570-38753822
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38734570-38753822/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38734570-38753822/peakInfo.rds
112 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38753822-38787223
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38753822-38787223/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38753822-38787223/peakInfo.rds
113 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38807475-38814105
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38807475-38814105/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38807475-38814105/peakInfo.rds
114 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38815199-38816357
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38815199-38816357/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38815199-38816357/peakInfo.rds
115 / 115 joint prediction problems /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38818375-38818835
Loading model from /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38818375-38818835/segmentations.RData
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/jointProblems/chr10:38818375-38818835/peakInfo.rds
problem.name jprob.name chrom peakStart peakEnd
1: chr10:18024675-38818835 chr10:33180464-33190124 chr10 33183538 33189956
2: chr10:18024675-38818835 chr10:33206237-33224554 chr10 33214280 33217224
3: chr10:18024675-38818835 chr10:33458386-33487678 chr10 33465654 33481514
4: chr10:18024675-38818835 chr10:33528532-33541783 chr10 33540234 33541622
5: chr10:18024675-38818835 chr10:35307742-35335186 chr10 35312789 35326798
6: chr10:18024675-38818835 chr10:35336932-35365040 chr10 35347833 35360475
7: chr10:18024675-38818835 chr10:35493813-35512116 chr10 35495528 35503061
8: chr10:18024675-38818835 chr10:35595780-35621405 chr10 35603255 35604631
9: chr10:18024675-38818835 chr10:35812583-35831786 chr10 35818984 35825348
10: chr10:18024675-38818835 chr10:35853322-35875392 chr10 35854798 35865645
11: chr10:18024675-38818835 chr10:38116115-38146639 chr10 38117692 38128249
12: chr10:18024675-38818835 chr10:38233108-38250623 chr10 38239397 38246632
13: chr10:18024675-38818835 chr10:38250623-38269748 chr10 38252268 38260875
14: chr10:18024675-38818835 chr10:38305956-38340772 chr10 38311865 38312855
15: chr10:18024675-38818835 chr10:38383454-38395652 chr10 38384461 38387347
16: chr10:18024675-38818835 chr10:38404897-38412091 chr10 38405366 38407487
17: chr10:18024675-38818835 chr10:38645638-38651882 chr10 38647171 38651786
18: chr10:18024675-38818835 chr10:38651882-38672038 chr10 38651965 38662180
19: chr10:18024675-38818835 chr10:38815199-38816357 chr10 38815694 38816169
20: chr10:18024675-38818835 chr10:38818375-38818835 chr10 38818443 38818541
peak.mean.vec sample.loss.diff.vec background.mean.vec sample.peaks.vec
1: <dgeMatrix> <dgeMatrix> <dgeMatrix> <lgCMatrix>
2: <dgeMatrix> <dgeMatrix> <dgeMatrix> <lgCMatrix>
3: <dgeMatrix> <dgeMatrix> <dgeMatrix> <lgCMatrix>
4: <dgeMatrix> <dgeMatrix> <dgeMatrix> <lgCMatrix>
5: <dgeMatrix> <dgeMatrix> <dgeMatrix> <lgCMatrix>
6: <dgeMatrix> <dgeMatrix> <dgeMatrix> <lgCMatrix>
7: <dgeMatrix> <dgeMatrix> <dgeMatrix> <lgCMatrix>
8: <dgeMatrix> <dgeMatrix> <dgeMatrix> <lgCMatrix>
9: <dgeMatrix> <dgeMatrix> <dgeMatrix> <lgCMatrix>
10: <dgeMatrix> <dgeMatrix> <dgeMatrix> <lgCMatrix>
11: <dgeMatrix> <dgeMatrix> <dgeMatrix> <lgCMatrix>
12: <dgeMatrix> <dgeMatrix> <dgeMatrix> <lgCMatrix>
13: <dgeMatrix> <dgeMatrix> <dgeMatrix> <lgCMatrix>
14: <dgeMatrix> <dgeMatrix> <dgeMatrix> <lgCMatrix>
15: <dgeMatrix> <dgeMatrix> <dgeMatrix> <lgCMatrix>
16: <dgeMatrix> <dgeMatrix> <dgeMatrix> <lgCMatrix>
17: <dgeMatrix> <dgeMatrix> <dgeMatrix> <lgCMatrix>
18: <dgeMatrix> <dgeMatrix> <dgeMatrix> <lgCMatrix>
19: <dgeMatrix> <dgeMatrix> <dgeMatrix> <lgCMatrix>
20: <dgeMatrix> <dgeMatrix> <dgeMatrix> <lgCMatrix>
group.peaks.vec sample.loss.diff group.loss.diff
1: <lgCMatrix> 13969.1881 13969.1881
2: <lgCMatrix> 3560.2802 3560.2802
3: <lgCMatrix> 58792.7114 58792.7114
4: <lgCMatrix> 4524.8958 4524.8958
5: <lgCMatrix> 8286.9640 8286.9640
6: <lgCMatrix> 16714.3314 16714.3314
7: <lgCMatrix> 32130.1188 32130.1188
8: <lgCMatrix> 28769.9791 28769.9791
9: <lgCMatrix> 18344.6809 18344.6809
10: <lgCMatrix> 81492.6932 81492.6932
11: <lgCMatrix> 48192.4239 48192.4239
12: <lgCMatrix> 33100.6311 33100.6311
13: <lgCMatrix> 47978.3372 47978.3372
14: <lgCMatrix> 13443.4611 13443.4611
15: <lgCMatrix> 10009.7382 10009.7382
16: <lgCMatrix> 46835.7402 46835.7402
17: <lgCMatrix> 14848.3235 14848.3235
18: <lgCMatrix> 16514.0583 16514.0583
19: <lgCMatrix> 2601.4151 2601.4151
20: <lgCMatrix> 953.2795 953.2795
Reading predicted peaks in 1 jobPeaks.RData files.
Read 115 joint problems, plotting 20 in chunk.
Read 38 labels.
Read 3 samples of coverage.
Read 1 samples of separate peak predictions.
Read joint peak predictions: 4 peaks in 4 peakInfo.RData files, 20 problems.
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/chunks/chr10:33061897-33974942/figure-predictions.png
Read 115 joint problems, plotting 6 in chunk.
Read 38 labels.
Read 3 samples of coverage.
Read 1 samples of separate peak predictions.
Read joint peak predictions: 4 peaks in 2 peakInfo.RData files, 6 problems.
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/chunks/chr10:35182820-35398459/figure-predictions.png
Read 115 joint problems, plotting 15 in chunk.
Read 38 labels.
Read 3 samples of coverage.
Read 1 samples of separate peak predictions.
Read joint peak predictions: 10 peaks in 6 peakInfo.RData files, 15 problems.
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/chunks/chr10:38041023-38444133/figure-predictions.png
Read 115 joint problems, plotting 6 in chunk.
Read 38 labels.
Read 3 samples of coverage.
Read 1 samples of separate peak predictions.
Read joint peak predictions: 3 peaks in 2 peakInfo.RData files, 6 problems.
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/chunks/chr10:38585584-38790663/figure-predictions.png
Read 115 joint problems, plotting 3 in chunk.
Read 38 labels.
Read 3 samples of coverage.
Read 0 samples of separate peak predictions.
Read joint peak predictions: 5 peaks in 2 peakInfo.RData files, 3 problems.
Writing /home/tdhock/PeakSegPipeline-test/input/problems/chr10:18024675-38818835/chunks/chr10:38807475-38819342/figure-predictions.png
pass1 - making usageList (1 chroms): 1 millis
pass2 - checking and writing primary data (19 records, 9 fields): 9 millis
pass1 - making usageList (1 chroms): 0 millis
pass2 - checking and writing primary data (1 records, 3 fields): 1 millis
pass1 - making usageList (1 chroms): 0 millis
pass2 - checking and writing primary data (115 records, 3 fields): 0 millis
pass1 - making usageList (1 chroms): 0 millis
pass2 - checking and writing primary data (18 records, 5 fields): 1 millis
Created http://members.cbio.mines-paristech.fr/~thocking/hubs/test/input/hub.txt
>
> test_that("relatives links for images", {
+ index.vec <- readLines(index.html)
+ pattern <- paste0(
+ '<a href="',
+ '(?<href>[^"]+)',
+ "[^<]+",
+ '<img src="',
+ '(?<src>[^"]+)')
+ index.txt <- paste(index.vec, collapse="\n")
+ match.mat <- namedCapture::str_match_all_named(index.txt, pattern)[[1]]
+ load(file.path(demo.dir, "chunk.limits.RData"))
+ chunk.dt <- data.table(chunk.limits)
+ prefix.vec <- chunk.dt[, paste0(
+ "problems/chr10:18024675-38818835/chunks/",
+ chrom, ":", chromStart, "-", chromEnd,
+ "/")]
+ src.vec <- paste0(prefix.vec, "figure-predictions-thumb.png")
+ expect_identical(match.mat[, "src"], src.vec)
+ href.vec <- paste0(prefix.vec, "figure-predictions.png")
+ expect_identical(match.mat[, "href"], href.vec)
+ })
>
> test_that("joint_peaks.bigWig files have the right number of peaks", {
+ jobPeaks.RData.vec <- Sys.glob(file.path(
+ demo.dir, "jobs", "*", "jobPeaks.RData"))
+ peak.mat.list <- list()
+ for(jobPeaks.RData in jobPeaks.RData.vec){
+ load(jobPeaks.RData)
+ peak.mat.list[[jobPeaks.RData]] <- do.call(cbind, jobPeaks$sample.peaks.vec)
+ }
+ peak.mat <- do.call(cbind, peak.mat.list)
+ library(Matrix)#for rowSums::Matrix
+ expected.peaks <- rowSums(peak.mat)
+ observed.peaks <- expected.peaks
+ for(sample.path in names(expected.peaks)){
+ peaks.bigWig <- file.path(
+ demo.dir, "samples", sample.path, "joint_peaks.bigWig")
+ peaks.dt <- readBigWig(peaks.bigWig, "chr10", 0, 135534747)
+ observed.peaks[[sample.path]] <- nrow(peaks.dt)
+ }
+ expect_equal(observed.peaks, expected.peaks)
+ })
>
tdhock@recycled:~$