inst/scripts/logging_test92.R

In vjcitn/BiocBuildTools: Bioconductor software ecosystem building tools

N_CPUS_INST = 30
library(BiocBuildTools)
library(bbsBuildArtifacts)
base = file.path("~", "REDO1")
try(dir.create(base))
srcs_target = file.path(base, "CORE92")
checks_target = file.path(base, "CORE92_CHECKSB")
bcchecks_target = file.path(base, "CORE92_BCCHECKSB")
bcobs_target = file.path(base, "CORE92_BCOBSB")
try(lapply(list(checks_target, bcchecks_target, bcobs_target), unlink, recursive=TRUE))
try(lapply(list(srcs_target, checks_target, bcchecks_target, bcobs_target), dir.create))
stopifnot(dir.exists(srcs_target))
s92 = core92()
c92 = PackageSet(core92())
c92d = add_dependencies(c92)
avail = dir(srcs_target, full.names=TRUE)
if (length(avail)>0) stopifnot(all(basename(avail) %in% s92))
if (length(avail)==0) populate_local_gits(c92d, srcs_target)
BiocManager::install(s92, Ncpus=N_CPUS_INST, ask=FALSE, update=FALSE)
library(BiocParallel)
mypar = MulticoreParam(40)
bplog(mypar) = TRUE
try(dir.create(file.path(base, "mylogs2")))
bplogdir(mypar) = file.path(base, "mylogs2")
register(mypar)
x = get_checks2(c92d, srcs_target, checks.destination = checks_target,
   bcchecks.destination = bcchecks_target, bcobj.destination = bcobs_target,
   BPOPTIONS = bpoptions(packages=c("pkgbuild", "rcmdcheck")))