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BUILD report for BiocParallel on malbec1

This page was generated on 2020-08-06 11:33:06 -0400 (Thu, 06 Aug 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE BiocParallel PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 157/1882HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
BiocParallel 1.23.2
Bioconductor Package Maintainer
Snapshot Date: 2020-08-05 14:50:59 -0400 (Wed, 05 Aug 2020)
URL: https://git.bioconductor.org/packages/BiocParallel
Branch: master
Last Commit: ad46db9
Last Changed Date: 2020-07-06 06:51:09 -0400 (Mon, 06 Jul 2020)
malbec1 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK [ OK ] OK UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
merida1 macOS 10.14.6 Mojave / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: BiocParallel
Version: 1.23.2
Command: /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data BiocParallel
StartedAt: 2020-08-05 18:20:10 -0400 (Wed, 05 Aug 2020)
EndedAt: 2020-08-05 18:21:36 -0400 (Wed, 05 Aug 2020)
EllapsedTime: 86.5 seconds
RetCode: 0
Status:  OK 
PackageFile: BiocParallel_1.23.2.tar.gz
PackageFileSize: 911.3 KiB

Command output

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###
### Running command:
###
###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data BiocParallel
###
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* checking for file ‘BiocParallel/DESCRIPTION’ ... OK
* preparing ‘BiocParallel’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* running ‘cleanup’
* installing the package to process help pages
* building the PDF package manual
Hmm ... looks like a package
Converting Rd files to LaTeX ..
Creating pdf output from LaTeX ...

This is pdfTeX, Version 3.14159265-2.6-1.40.18 (TeX Live 2017/Debian) (preloaded format=pdflatex)
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[]\T1/zi4/m/n/10 logical(1)\T1/ptm/m/n/10 BatchJobs cre-ates tem-po-rary di-rec
-to-ries in the \T1/zi4/m/n/10 work.dir\T1/ptm/m/n/10 . If \T1/zi4/m/n/10 clean
up
[2]
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\T1/ptm/m/n/10 where the re-sources de-fined in the con-fig-u-ra-tion are used.
 Ig-nored when \T1/zi4/m/n/10 submit.pars

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\T1/ptm/m/n/10 user-supplied ar-gu-ment \T1/zi4/m/n/10 resources \T1/ptm/m/n/10
 to \T1/zi4/m/n/10 BatchJobsParam \T1/ptm/m/n/10 is ig-nored. \T1/zi4/m/n/10 su
bmitJobs
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Overfull \hbox (44.6897pt too wide) in paragraph at lines 345--350
[]\T1/zi4/m/n/10 named list()\T1/ptm/m/n/10 Arguments passed to the \T1/zi4/m/n
/10 resources \T1/ptm/m/n/10 ar-gu-ment of \T1/zi4/m/n/10 batchtools::submitJob
s
[5] [6] (/usr/share/texlive/texmf-dist/tex/latex/base/utf8.def) [7]
(/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1ptm.fd)
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\T1/zi4/m/n/10 value \T1/ptm/m/n/10 must be a scalar in-te-ger >= 0L. This ar-g
u-ment ap-plies to \T1/zi4/m/n/10 SnowParam \T1/ptm/m/n/10 and \T1/zi4/m/n/10 M
ulticoreParam
[8]
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[]\T1/zi4/m/n/10 bplog(x)\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bplog(x) <-value\T1/pt
m/m/n/10 : Get or en-able log-ging, if avail-able. \T1/zi4/m/n/10 value \T1/ptm
/m/n/10 must be a \T1/zi4/m/n/10 logical(1)\T1/ptm/m/n/10 . 

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[]\T1/zi4/m/n/10 bpexportglobals(x)\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bpexportglob
als(x) <-value\T1/ptm/m/n/10 : \T1/zi4/m/n/10 logical(1) \T1/ptm/m/n/10 Ex-port
 \T1/zi4/m/n/10 base::options()

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[]\T1/zi4/m/n/10 bpmapply(FUN,...,MoreArgs=NULL,SIMPLIFY=TRUE,USE.NAMES=TRUE,BP
PARAM=bpparam()) 
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[]\T1/ptm/m/n/10 Identifies un-suc-cess-ful re-sults re-turned from \T1/zi4/m/n
/10 bplapply\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bpmapply\T1/ptm/m/n/10 , \T1/zi4/m/
n/10 bpvec\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bpaggregate \T1/ptm/m/n/10 or \T1/zi4
/m/n/10 bpvectorize\T1/ptm/m/n/10 . 
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[]\T1/ptm/m/n/10 An ob-ject con-tain-ing in-for-ma-tion about the clus-ter, re-
turned by \T1/zi4/m/n/10 bpbackend(<BPPARAM>)\T1/ptm/m/n/10 . 

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[]\T1/ptm/m/n/10 For \T1/zi4/m/n/10 .prototype_update()\T1/ptm/m/n/10 , name-va
lue pairs to ini-tial-ize de-rived and base class

Overfull \hbox (2.5179pt too wide) in paragraph at lines 2229--2239
\T1/ptm/m/n/10 value pairs pro-vid-ing de-fault pa-ram-e-teter ar-gu-ments. The
 de-fault val-ues for the \T1/zi4/m/n/10 BiocParallelParam

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\T1/ptm/m/n/10 base class is pro-vided in a list \T1/zi4/m/n/10 .BiocParallelPa
ram_prototype\T1/ptm/m/n/10 , and the func-tion \T1/zi4/m/n/10 .prototype_updat
e()

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[]\T1/zi4/m/n/10 bpstop,BiocParallelParam-method \T1/ptm/m/n/10 (\T1/zi4/m/n/10
 .bpstop_impl()\T1/ptm/m/n/10 ) en-sures ap-pro-pri-ate clean-up of stopped
[27]
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[]\T1/zi4/m/n/10 bplapply,ANY,BiocParallelParam-method \T1/ptm/m/n/10 and \T1/z
i4/m/n/10 bpiterate,ANY,BiocParallelParam-method

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\T1/zi4/m/n/10 length() \T1/ptm/m/n/10 (num-ber of nodes). In ad-di-tion, the b
ack-ends must sup-port \T1/zi4/m/n/10 .send_to() \T1/ptm/m/n/10 and \T1/zi4/m/n
/10 .recv_any()

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\T1/ptm/m/n/10 man-ager and \T1/zi4/m/n/10 .send()\T1/ptm/m/n/10 , \T1/zi4/m/n/
10 .recv()\T1/ptm/m/n/10 , and \T1/zi4/m/n/10 .close() \T1/ptm/m/n/10 worker me
th-ods. De-fault \T1/zi4/m/n/10 .send_all() \T1/ptm/m/n/10 and \T1/zi4/m/n/10 .
recv_all()
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\T1/ptm/m/n/10 page (e.g., \T1/zi4/m/n/10 ?bpisup\T1/ptm/m/n/10 ): [][]\T1/zi4/
m/n/10 bpworkers[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 bpnworkers[][][]\T1/p
tm/m/n/10 , [][]\T1/zi4/m/n/10 bpstart[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10
 bpstop[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 bpisup[][][]\T1/ptm/m/n/10 , [
][]\T1/zi4/m/n/10 bpbackend[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 bpbackend<
-[][][]\T1/ptm/m/n/10 ,
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[]\T1/zi4/m/n/10 logical(1) \T1/ptm/m/n/10 Ex-port \T1/zi4/m/n/10 base::options
() \T1/ptm/m/n/10 from man-ager to work-ers? De-fault \T1/zi4/m/n/10 TRUE\T1/pt
m/m/n/10 . 

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[]\T1/zi4/m/n/10 character(1) \T1/ptm/m/n/10 Host name of man-ager node. See 'G
lobal Op-tions', in [][]\T1/zi4/m/n/10 SnowParam[][][]\T1/ptm/m/n/10 . 
[33]
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\T1/ptm/m/n/10 limit in \T1/ptm/m/it/10 R\T1/ptm/m/n/10 ) mi-nus the num-ber of
 open con-nec-tions as re-turned by \T1/zi4/m/n/10 nrow(showConnections(all=TRU
E))\T1/ptm/m/n/10 .

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\T1/ptm/m/n/10 The op-tion \T1/zi4/m/n/10 mc.cores \T1/ptm/m/n/10 can be used t
o spec-ify an ar-bi-trary num-ber of work-ers, e.g., \T1/zi4/m/n/10 options(mc.
cores=4L)\T1/ptm/m/n/10 ;
[34]
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\T1/ptm/m/n/10 seed of the mas-ter pro-cess af-ter se-lect-ing the L'Ecuyer gen
-er-a-tor. See ?\T1/zi4/m/n/10 clusterSetRNGStream

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[]\T1/zi4/m/n/10 MulticoreParam(workers = multicoreWorkers(),tasks = 0L,stop.on
.error = FALSE,tasks

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\T1/zi4/m/n/10 = 0L,progressbar = FALSE,RNGseed = NULL,timeout = Inf,exportglob
als=TRUE,log = FALSE,threshold

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\T1/zi4/m/n/10 = "INFO",logdir = NA_character_,resultdir = NA_character_,manage
r.hostname = NA_character_,manager.port

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[]\T1/zi4/m/n/10 bplog(x)\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bplog(x) <-value\T1/pt
m/m/n/10 : Get or set the value to en-able log-ging. \T1/zi4/m/n/10 value \T1/p
tm/m/n/10 must be a \T1/zi4/m/n/10 logical(1)\T1/ptm/m/n/10 . 
[35] [36]
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[]\T1/ptm/m/n/10 Make this the de-fault \T1/zi4/m/n/10 BiocParallelParam \T1/pt
m/m/n/10 for sub-se-quent eval-u-a-tions? If \T1/zi4/m/n/10 FALSE\T1/ptm/m/n/10
 ,

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\T1/ptm/m/n/10 tomiza-tions dur-ing start-up (e.g., in an \T1/zi4/m/n/10 .Rprof
ile \T1/ptm/m/n/10 file) with, for in-stance, \T1/zi4/m/n/10 options(MulticoreP
aram=quote(MulticoreParam(workers=8)))\T1/ptm/m/n/10 . 

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\T1/ptm/m/n/10 e.g., \T1/zi4/m/n/10 options(MulticoreParam=MulticoreParam()) \T
1/ptm/m/n/10 and then the value of \T1/zi4/m/n/10 registered(bpparamClass)\T1/p
tm/m/n/10 . 
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[]\T1/zi4/m/n/10 logical(1) \T1/ptm/m/n/10 Ex-port \T1/zi4/m/n/10 base::options
() \T1/ptm/m/n/10 from man-ager to work-ers? De-fault \T1/zi4/m/n/10 TRUE\T1/pt
m/m/n/10 . 
[42]
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\T1/ptm/m/n/10 coded limit in \T1/ptm/m/it/10 R\T1/ptm/m/n/10 ) mi-nus the num-
ber of open con-nec-tions as re-turned by \T1/zi4/m/n/10 nrow(showConnections(a
ll=TRUE))\T1/ptm/m/n/10 .

Overfull \hbox (28.01889pt too wide) in paragraph at lines 3544--3555
\T1/ptm/m/n/10 The op-tion \T1/zi4/m/n/10 mc.cores \T1/ptm/m/n/10 can be used t
o spec-ify an ar-bi-trary num-ber of work-ers, e.g., \T1/zi4/m/n/10 options(mc.
cores=4L)\T1/ptm/m/n/10 ;

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\T1/ptm/m/n/10 seed of the mas-ter pro-cess af-ter se-lect-ing the L'Ecuyer gen
-er-a-tor. See ?\T1/zi4/m/n/10 clusterSetRNGStream
[43]
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[]\T1/ptm/m/n/10 NOTE: The \T1/zi4/m/n/10 PSOCK \T1/ptm/m/n/10 clus-ter from th
e \T1/zi4/m/n/10 parallel \T1/ptm/m/n/10 pack-age does not sup-port clus-ter op
-tions \T1/zi4/m/n/10 scriptdir

Overfull \hbox (2.28088pt too wide) in paragraph at lines 3646--3647
[]\T1/zi4/m/n/10 SnowParam(workers = snowWorkers(),type=c("SOCK","MPI"),tasks =
 0L,stop.on.error =

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\T1/zi4/m/n/10 FALSE,progressbar = FALSE,RNGseed = NULL,timeout = Inf,exportglo
bals = TRUE,log

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\T1/zi4/m/n/10 = FALSE,threshold = "INFO",logdir = NA_character_,resultdir = NA
_character_,jobname

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[]\T1/zi4/m/n/10 bplog(x)\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bplog(x) <-value\T1/pt
m/m/n/10 : Get or set the value to en-able log-ging. \T1/zi4/m/n/10 value \T1/p
tm/m/n/10 must be a \T1/zi4/m/n/10 logical(1)\T1/ptm/m/n/10 . 
[44]
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[]\T1/zi4/m/n/10 as(from,"SnowParam")\T1/ptm/m/n/10 : Cre-ates a \T1/zi4/m/n/10
 SnowParam \T1/ptm/m/n/10 ob-ject from a \T1/zi4/m/n/10 SOCKcluster \T1/ptm/m/n
/10 or \T1/zi4/m/n/10 spawnedMPIcluster

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[]\T1/ptm/m/n/10 The de-fault man-ager host-name is "lo-cal-host" when the num-
ber of work-ers are spec-i-fied as a \T1/zi4/m/n/10 numeric(1)\T1/ptm/m/n/10 ,

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\T1/ptm/m/n/10 vari-able \T1/zi4/m/n/10 MASTER\T1/ptm/m/n/10 , or the global op
-tion \T1/zi4/m/n/10 bphost \T1/ptm/m/n/10 (e.g., \T1/zi4/m/n/10 options(bphost
=Sys.info()[["nodename"]])\T1/ptm/m/n/10 . 
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[]\T1/zi4/m/n/10 logical(1)\T1/ptm/m/n/10 BatchJobs cre-ates tem-po-rary di-rec
-to-ries in the \T1/zi4/m/n/10 work.dir\T1/ptm/m/n/10 . If \T1/zi4/m/n/10 clean
up

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\T1/ptm/m/n/10 where the re-sources de-fined in the con-fig-u-ra-tion are used.
 Ig-nored when \T1/zi4/m/n/10 submit.pars
[3]
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\T1/ptm/m/n/10 user-supplied ar-gu-ment \T1/zi4/m/n/10 resources \T1/ptm/m/n/10
 to \T1/zi4/m/n/10 BatchJobsParam \T1/ptm/m/n/10 is ig-nored. \T1/zi4/m/n/10 su
bmitJobs
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[]\T1/zi4/m/n/10 named list()\T1/ptm/m/n/10 Arguments passed to the \T1/zi4/m/n
/10 resources \T1/ptm/m/n/10 ar-gu-ment of \T1/zi4/m/n/10 batchtools::submitJob
s
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\T1/zi4/m/n/10 value \T1/ptm/m/n/10 must be a scalar in-te-ger >= 0L. This ar-g
u-ment ap-plies to \T1/zi4/m/n/10 SnowParam \T1/ptm/m/n/10 and \T1/zi4/m/n/10 M
ulticoreParam

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[]\T1/zi4/m/n/10 bplog(x)\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bplog(x) <-value\T1/pt
m/m/n/10 : Get or en-able log-ging, if avail-able. \T1/zi4/m/n/10 value \T1/ptm
/m/n/10 must be a \T1/zi4/m/n/10 logical(1)\T1/ptm/m/n/10 . 

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[]\T1/zi4/m/n/10 bpexportglobals(x)\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bpexportglob
als(x) <-value\T1/ptm/m/n/10 : \T1/zi4/m/n/10 logical(1) \T1/ptm/m/n/10 Ex-port
 \T1/zi4/m/n/10 base::options()
[9]
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[]\T1/zi4/m/n/10 bpmapply(FUN,...,MoreArgs=NULL,SIMPLIFY=TRUE,USE.NAMES=TRUE,BP
PARAM=bpparam()) 
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[]\T1/ptm/m/n/10 Identifies un-suc-cess-ful re-sults re-turned from \T1/zi4/m/n
/10 bplapply\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bpmapply\T1/ptm/m/n/10 , \T1/zi4/m/
n/10 bpvec\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bpaggregate \T1/ptm/m/n/10 or \T1/zi4
/m/n/10 bpvectorize\T1/ptm/m/n/10 . 
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[]\T1/ptm/m/n/10 An ob-ject con-tain-ing in-for-ma-tion about the clus-ter, re-
turned by \T1/zi4/m/n/10 bpbackend(<BPPARAM>)\T1/ptm/m/n/10 . 

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[]\T1/ptm/m/n/10 For \T1/zi4/m/n/10 .prototype_update()\T1/ptm/m/n/10 , name-va
lue pairs to ini-tial-ize de-rived and base class

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\T1/ptm/m/n/10 value pairs pro-vid-ing de-fault pa-ram-e-teter ar-gu-ments. The
 de-fault val-ues for the \T1/zi4/m/n/10 BiocParallelParam

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\T1/ptm/m/n/10 base class is pro-vided in a list \T1/zi4/m/n/10 .BiocParallelPa
ram_prototype\T1/ptm/m/n/10 , and the func-tion \T1/zi4/m/n/10 .prototype_updat
e()

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[]\T1/zi4/m/n/10 bpstop,BiocParallelParam-method \T1/ptm/m/n/10 (\T1/zi4/m/n/10
 .bpstop_impl()\T1/ptm/m/n/10 ) en-sures ap-pro-pri-ate clean-up of stopped

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[]\T1/zi4/m/n/10 bplapply,ANY,BiocParallelParam-method \T1/ptm/m/n/10 and \T1/z
i4/m/n/10 bpiterate,ANY,BiocParallelParam-method
[28]
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\T1/zi4/m/n/10 length() \T1/ptm/m/n/10 (num-ber of nodes). In ad-di-tion, the b
ack-ends must sup-port \T1/zi4/m/n/10 .send_to() \T1/ptm/m/n/10 and \T1/zi4/m/n
/10 .recv_any()

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\T1/ptm/m/n/10 man-ager and \T1/zi4/m/n/10 .send()\T1/ptm/m/n/10 , \T1/zi4/m/n/
10 .recv()\T1/ptm/m/n/10 , and \T1/zi4/m/n/10 .close() \T1/ptm/m/n/10 worker me
th-ods. De-fault \T1/zi4/m/n/10 .send_all() \T1/ptm/m/n/10 and \T1/zi4/m/n/10 .
recv_all()
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\T1/ptm/m/n/10 page (e.g., \T1/zi4/m/n/10 ?bpisup\T1/ptm/m/n/10 ): [][]\T1/zi4/
m/n/10 bpworkers[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 bpnworkers[][][]\T1/p
tm/m/n/10 , [][]\T1/zi4/m/n/10 bpstart[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10
 bpstop[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 bpisup[][][]\T1/ptm/m/n/10 , [
][]\T1/zi4/m/n/10 bpbackend[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 bpbackend<
-[][][]\T1/ptm/m/n/10 ,
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[]\T1/zi4/m/n/10 logical(1) \T1/ptm/m/n/10 Ex-port \T1/zi4/m/n/10 base::options
() \T1/ptm/m/n/10 from man-ager to work-ers? De-fault \T1/zi4/m/n/10 TRUE\T1/pt
m/m/n/10 . 

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[]\T1/zi4/m/n/10 character(1) \T1/ptm/m/n/10 Host name of man-ager node. See 'G
lobal Op-tions', in [][]\T1/zi4/m/n/10 SnowParam[][][]\T1/ptm/m/n/10 . 
[34]
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\T1/ptm/m/n/10 limit in \T1/ptm/m/it/10 R\T1/ptm/m/n/10 ) mi-nus the num-ber of
 open con-nec-tions as re-turned by \T1/zi4/m/n/10 nrow(showConnections(all=TRU
E))\T1/ptm/m/n/10 .

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\T1/ptm/m/n/10 The op-tion \T1/zi4/m/n/10 mc.cores \T1/ptm/m/n/10 can be used t
o spec-ify an ar-bi-trary num-ber of work-ers, e.g., \T1/zi4/m/n/10 options(mc.
cores=4L)\T1/ptm/m/n/10 ;

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\T1/ptm/m/n/10 seed of the mas-ter pro-cess af-ter se-lect-ing the L'Ecuyer gen
-er-a-tor. See ?\T1/zi4/m/n/10 clusterSetRNGStream
[35]
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[]\T1/zi4/m/n/10 MulticoreParam(workers = multicoreWorkers(),tasks = 0L,stop.on
.error = FALSE,tasks

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\T1/zi4/m/n/10 = 0L,progressbar = FALSE,RNGseed = NULL,timeout = Inf,exportglob
als=TRUE,log = FALSE,threshold

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\T1/zi4/m/n/10 = "INFO",logdir = NA_character_,resultdir = NA_character_,manage
r.hostname = NA_character_,manager.port

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[]\T1/zi4/m/n/10 bplog(x)\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bplog(x) <-value\T1/pt
m/m/n/10 : Get or set the value to en-able log-ging. \T1/zi4/m/n/10 value \T1/p
tm/m/n/10 must be a \T1/zi4/m/n/10 logical(1)\T1/ptm/m/n/10 . 
[36] [37]
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[]\T1/ptm/m/n/10 Make this the de-fault \T1/zi4/m/n/10 BiocParallelParam \T1/pt
m/m/n/10 for sub-se-quent eval-u-a-tions? If \T1/zi4/m/n/10 FALSE\T1/ptm/m/n/10
 ,
[39]
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\T1/ptm/m/n/10 tomiza-tions dur-ing start-up (e.g., in an \T1/zi4/m/n/10 .Rprof
ile \T1/ptm/m/n/10 file) with, for in-stance, \T1/zi4/m/n/10 options(MulticoreP
aram=quote(MulticoreParam(workers=8)))\T1/ptm/m/n/10 . 

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\T1/ptm/m/n/10 e.g., \T1/zi4/m/n/10 options(MulticoreParam=MulticoreParam()) \T
1/ptm/m/n/10 and then the value of \T1/zi4/m/n/10 registered(bpparamClass)\T1/p
tm/m/n/10 . 
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[]\T1/zi4/m/n/10 logical(1) \T1/ptm/m/n/10 Ex-port \T1/zi4/m/n/10 base::options
() \T1/ptm/m/n/10 from man-ager to work-ers? De-fault \T1/zi4/m/n/10 TRUE\T1/pt
m/m/n/10 . 

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\T1/ptm/m/n/10 coded limit in \T1/ptm/m/it/10 R\T1/ptm/m/n/10 ) mi-nus the num-
ber of open con-nec-tions as re-turned by \T1/zi4/m/n/10 nrow(showConnections(a
ll=TRUE))\T1/ptm/m/n/10 .

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\T1/ptm/m/n/10 The op-tion \T1/zi4/m/n/10 mc.cores \T1/ptm/m/n/10 can be used t
o spec-ify an ar-bi-trary num-ber of work-ers, e.g., \T1/zi4/m/n/10 options(mc.
cores=4L)\T1/ptm/m/n/10 ;
[43]
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\T1/ptm/m/n/10 seed of the mas-ter pro-cess af-ter se-lect-ing the L'Ecuyer gen
-er-a-tor. See ?\T1/zi4/m/n/10 clusterSetRNGStream

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[]\T1/ptm/m/n/10 NOTE: The \T1/zi4/m/n/10 PSOCK \T1/ptm/m/n/10 clus-ter from th
e \T1/zi4/m/n/10 parallel \T1/ptm/m/n/10 pack-age does not sup-port clus-ter op
-tions \T1/zi4/m/n/10 scriptdir

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[]\T1/zi4/m/n/10 SnowParam(workers = snowWorkers(),type=c("SOCK","MPI"),tasks =
 0L,stop.on.error =

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\T1/zi4/m/n/10 FALSE,progressbar = FALSE,RNGseed = NULL,timeout = Inf,exportglo
bals = TRUE,log

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\T1/zi4/m/n/10 = FALSE,threshold = "INFO",logdir = NA_character_,resultdir = NA
_character_,jobname
[44]
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[]\T1/zi4/m/n/10 bplog(x)\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bplog(x) <-value\T1/pt
m/m/n/10 : Get or set the value to en-able log-ging. \T1/zi4/m/n/10 value \T1/p
tm/m/n/10 must be a \T1/zi4/m/n/10 logical(1)\T1/ptm/m/n/10 . 
[45]
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[]\T1/zi4/m/n/10 as(from,"SnowParam")\T1/ptm/m/n/10 : Cre-ates a \T1/zi4/m/n/10
 SnowParam \T1/ptm/m/n/10 ob-ject from a \T1/zi4/m/n/10 SOCKcluster \T1/ptm/m/n
/10 or \T1/zi4/m/n/10 spawnedMPIcluster

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[]\T1/ptm/m/n/10 The de-fault man-ager host-name is "lo-cal-host" when the num-
ber of work-ers are spec-i-fied as a \T1/zi4/m/n/10 numeric(1)\T1/ptm/m/n/10 ,

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\T1/ptm/m/n/10 vari-able \T1/zi4/m/n/10 MASTER\T1/ptm/m/n/10 , or the global op
-tion \T1/zi4/m/n/10 bphost \T1/ptm/m/n/10 (e.g., \T1/zi4/m/n/10 options(bphost
=Sys.info()[["nodename"]])\T1/ptm/m/n/10 . 
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[]\T1/zi4/m/n/10 logical(1)\T1/ptm/m/n/10 BatchJobs cre-ates tem-po-rary di-rec
-to-ries in the \T1/zi4/m/n/10 work.dir\T1/ptm/m/n/10 . If \T1/zi4/m/n/10 clean
up

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\T1/ptm/m/n/10 where the re-sources de-fined in the con-fig-u-ra-tion are used.
 Ig-nored when \T1/zi4/m/n/10 submit.pars
[3]
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\T1/ptm/m/n/10 user-supplied ar-gu-ment \T1/zi4/m/n/10 resources \T1/ptm/m/n/10
 to \T1/zi4/m/n/10 BatchJobsParam \T1/ptm/m/n/10 is ig-nored. \T1/zi4/m/n/10 su
bmitJobs
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[]\T1/zi4/m/n/10 named list()\T1/ptm/m/n/10 Arguments passed to the \T1/zi4/m/n
/10 resources \T1/ptm/m/n/10 ar-gu-ment of \T1/zi4/m/n/10 batchtools::submitJob
s
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\T1/zi4/m/n/10 value \T1/ptm/m/n/10 must be a scalar in-te-ger >= 0L. This ar-g
u-ment ap-plies to \T1/zi4/m/n/10 SnowParam \T1/ptm/m/n/10 and \T1/zi4/m/n/10 M
ulticoreParam

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[]\T1/zi4/m/n/10 bplog(x)\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bplog(x) <-value\T1/pt
m/m/n/10 : Get or en-able log-ging, if avail-able. \T1/zi4/m/n/10 value \T1/ptm
/m/n/10 must be a \T1/zi4/m/n/10 logical(1)\T1/ptm/m/n/10 . 

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[]\T1/zi4/m/n/10 bpexportglobals(x)\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bpexportglob
als(x) <-value\T1/ptm/m/n/10 : \T1/zi4/m/n/10 logical(1) \T1/ptm/m/n/10 Ex-port
 \T1/zi4/m/n/10 base::options()
[9]
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[]\T1/zi4/m/n/10 bpmapply(FUN,...,MoreArgs=NULL,SIMPLIFY=TRUE,USE.NAMES=TRUE,BP
PARAM=bpparam()) 
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[]\T1/ptm/m/n/10 Identifies un-suc-cess-ful re-sults re-turned from \T1/zi4/m/n
/10 bplapply\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bpmapply\T1/ptm/m/n/10 , \T1/zi4/m/
n/10 bpvec\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bpaggregate \T1/ptm/m/n/10 or \T1/zi4
/m/n/10 bpvectorize\T1/ptm/m/n/10 . 
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[]\T1/ptm/m/n/10 An ob-ject con-tain-ing in-for-ma-tion about the clus-ter, re-
turned by \T1/zi4/m/n/10 bpbackend(<BPPARAM>)\T1/ptm/m/n/10 . 

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[]\T1/ptm/m/n/10 For \T1/zi4/m/n/10 .prototype_update()\T1/ptm/m/n/10 , name-va
lue pairs to ini-tial-ize de-rived and base class

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\T1/ptm/m/n/10 value pairs pro-vid-ing de-fault pa-ram-e-teter ar-gu-ments. The
 de-fault val-ues for the \T1/zi4/m/n/10 BiocParallelParam

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\T1/ptm/m/n/10 base class is pro-vided in a list \T1/zi4/m/n/10 .BiocParallelPa
ram_prototype\T1/ptm/m/n/10 , and the func-tion \T1/zi4/m/n/10 .prototype_updat
e()

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[]\T1/zi4/m/n/10 bpstop,BiocParallelParam-method \T1/ptm/m/n/10 (\T1/zi4/m/n/10
 .bpstop_impl()\T1/ptm/m/n/10 ) en-sures ap-pro-pri-ate clean-up of stopped

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[]\T1/zi4/m/n/10 bplapply,ANY,BiocParallelParam-method \T1/ptm/m/n/10 and \T1/z
i4/m/n/10 bpiterate,ANY,BiocParallelParam-method
[28]
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\T1/zi4/m/n/10 length() \T1/ptm/m/n/10 (num-ber of nodes). In ad-di-tion, the b
ack-ends must sup-port \T1/zi4/m/n/10 .send_to() \T1/ptm/m/n/10 and \T1/zi4/m/n
/10 .recv_any()

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\T1/ptm/m/n/10 man-ager and \T1/zi4/m/n/10 .send()\T1/ptm/m/n/10 , \T1/zi4/m/n/
10 .recv()\T1/ptm/m/n/10 , and \T1/zi4/m/n/10 .close() \T1/ptm/m/n/10 worker me
th-ods. De-fault \T1/zi4/m/n/10 .send_all() \T1/ptm/m/n/10 and \T1/zi4/m/n/10 .
recv_all()
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\T1/ptm/m/n/10 page (e.g., \T1/zi4/m/n/10 ?bpisup\T1/ptm/m/n/10 ): [][]\T1/zi4/
m/n/10 bpworkers[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 bpnworkers[][][]\T1/p
tm/m/n/10 , [][]\T1/zi4/m/n/10 bpstart[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10
 bpstop[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 bpisup[][][]\T1/ptm/m/n/10 , [
][]\T1/zi4/m/n/10 bpbackend[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 bpbackend<
-[][][]\T1/ptm/m/n/10 ,
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[]\T1/zi4/m/n/10 logical(1) \T1/ptm/m/n/10 Ex-port \T1/zi4/m/n/10 base::options
() \T1/ptm/m/n/10 from man-ager to work-ers? De-fault \T1/zi4/m/n/10 TRUE\T1/pt
m/m/n/10 . 

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[]\T1/zi4/m/n/10 character(1) \T1/ptm/m/n/10 Host name of man-ager node. See 'G
lobal Op-tions', in [][]\T1/zi4/m/n/10 SnowParam[][][]\T1/ptm/m/n/10 . 
[34]
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\T1/ptm/m/n/10 limit in \T1/ptm/m/it/10 R\T1/ptm/m/n/10 ) mi-nus the num-ber of
 open con-nec-tions as re-turned by \T1/zi4/m/n/10 nrow(showConnections(all=TRU
E))\T1/ptm/m/n/10 .

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\T1/ptm/m/n/10 The op-tion \T1/zi4/m/n/10 mc.cores \T1/ptm/m/n/10 can be used t
o spec-ify an ar-bi-trary num-ber of work-ers, e.g., \T1/zi4/m/n/10 options(mc.
cores=4L)\T1/ptm/m/n/10 ;

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\T1/ptm/m/n/10 seed of the mas-ter pro-cess af-ter se-lect-ing the L'Ecuyer gen
-er-a-tor. See ?\T1/zi4/m/n/10 clusterSetRNGStream
[35]
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[]\T1/zi4/m/n/10 MulticoreParam(workers = multicoreWorkers(),tasks = 0L,stop.on
.error = FALSE,tasks

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\T1/zi4/m/n/10 = 0L,progressbar = FALSE,RNGseed = NULL,timeout = Inf,exportglob
als=TRUE,log = FALSE,threshold

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\T1/zi4/m/n/10 = "INFO",logdir = NA_character_,resultdir = NA_character_,manage
r.hostname = NA_character_,manager.port

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[]\T1/zi4/m/n/10 bplog(x)\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bplog(x) <-value\T1/pt
m/m/n/10 : Get or set the value to en-able log-ging. \T1/zi4/m/n/10 value \T1/p
tm/m/n/10 must be a \T1/zi4/m/n/10 logical(1)\T1/ptm/m/n/10 . 
[36] [37]
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[]\T1/ptm/m/n/10 Make this the de-fault \T1/zi4/m/n/10 BiocParallelParam \T1/pt
m/m/n/10 for sub-se-quent eval-u-a-tions? If \T1/zi4/m/n/10 FALSE\T1/ptm/m/n/10
 ,
[39]
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\T1/ptm/m/n/10 tomiza-tions dur-ing start-up (e.g., in an \T1/zi4/m/n/10 .Rprof
ile \T1/ptm/m/n/10 file) with, for in-stance, \T1/zi4/m/n/10 options(MulticoreP
aram=quote(MulticoreParam(workers=8)))\T1/ptm/m/n/10 . 

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\T1/ptm/m/n/10 e.g., \T1/zi4/m/n/10 options(MulticoreParam=MulticoreParam()) \T
1/ptm/m/n/10 and then the value of \T1/zi4/m/n/10 registered(bpparamClass)\T1/p
tm/m/n/10 . 
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[]\T1/zi4/m/n/10 logical(1) \T1/ptm/m/n/10 Ex-port \T1/zi4/m/n/10 base::options
() \T1/ptm/m/n/10 from man-ager to work-ers? De-fault \T1/zi4/m/n/10 TRUE\T1/pt
m/m/n/10 . 

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ber of open con-nec-tions as re-turned by \T1/zi4/m/n/10 nrow(showConnections(a
ll=TRUE))\T1/ptm/m/n/10 .

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\T1/ptm/m/n/10 The op-tion \T1/zi4/m/n/10 mc.cores \T1/ptm/m/n/10 can be used t
o spec-ify an ar-bi-trary num-ber of work-ers, e.g., \T1/zi4/m/n/10 options(mc.
cores=4L)\T1/ptm/m/n/10 ;
[43]
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\T1/ptm/m/n/10 seed of the mas-ter pro-cess af-ter se-lect-ing the L'Ecuyer gen
-er-a-tor. See ?\T1/zi4/m/n/10 clusterSetRNGStream

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[]\T1/ptm/m/n/10 NOTE: The \T1/zi4/m/n/10 PSOCK \T1/ptm/m/n/10 clus-ter from th
e \T1/zi4/m/n/10 parallel \T1/ptm/m/n/10 pack-age does not sup-port clus-ter op
-tions \T1/zi4/m/n/10 scriptdir

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[]\T1/zi4/m/n/10 SnowParam(workers = snowWorkers(),type=c("SOCK","MPI"),tasks =
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bals = TRUE,log

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_character_,jobname
[44]
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[]\T1/zi4/m/n/10 bplog(x)\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bplog(x) <-value\T1/pt
m/m/n/10 : Get or set the value to en-able log-ging. \T1/zi4/m/n/10 value \T1/p
tm/m/n/10 must be a \T1/zi4/m/n/10 logical(1)\T1/ptm/m/n/10 . 
[45]
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[]\T1/zi4/m/n/10 as(from,"SnowParam")\T1/ptm/m/n/10 : Cre-ates a \T1/zi4/m/n/10
 SnowParam \T1/ptm/m/n/10 ob-ject from a \T1/zi4/m/n/10 SOCKcluster \T1/ptm/m/n
/10 or \T1/zi4/m/n/10 spawnedMPIcluster

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[]\T1/ptm/m/n/10 The de-fault man-ager host-name is "lo-cal-host" when the num-
ber of work-ers are spec-i-fied as a \T1/zi4/m/n/10 numeric(1)\T1/ptm/m/n/10 ,

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\T1/ptm/m/n/10 vari-able \T1/zi4/m/n/10 MASTER\T1/ptm/m/n/10 , or the global op
-tion \T1/zi4/m/n/10 bphost \T1/ptm/m/n/10 (e.g., \T1/zi4/m/n/10 options(bphost
=Sys.info()[["nodename"]])\T1/ptm/m/n/10 . 
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[]\T1/zi4/m/it/10 .recv_all,TransientMulticoreParam-method 

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[]\T1/zi4/m/it/10 .recv_any,TransientMulticoreParam-method 

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[49]
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[]\T1/zi4/m/it/10 bpexportglobals,BiocParallelParam-method 

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[]\T1/zi4/m/it/10 bpiterate,ANY,ANY,BatchJobsParam-method 

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[]\T1/zi4/m/it/10 bpiterate,ANY,ANY,BatchtoolsParam-method 

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[]\T1/zi4/m/it/10 bpiterate,ANY,ANY,BiocParallelParam-method 

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[]\T1/zi4/m/it/10 bpjobname<-,BiocParallelParam,character-method 
[50]
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[]\T1/zi4/m/it/10 bpRNGseed<-,BatchtoolsParam,numeric-method 

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[]\T1/zi4/m/it/10 bpRNGseed<-,BiocParallelParam,numeric-method 

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[]\T1/zi4/m/it/10 bpstart,TransientMulticoreParam-method 
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[]\T1/zi4/m/it/10 bpstopOnError,BiocParallelParam-method 

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[]\T1/zi4/m/it/10 coerce,spawnedMPIcluster,SnowParam-method 
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m/m/n/10 : Get or en-able log-ging, if avail-able. \T1/zi4/m/n/10 value \T1/ptm
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[]\T1/zi4/m/n/10 bpexportglobals(x)\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bpexportglob
als(x) <-value\T1/ptm/m/n/10 : \T1/zi4/m/n/10 logical(1) \T1/ptm/m/n/10 Ex-port
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\T1/ptm/m/n/10 base class is pro-vided in a list \T1/zi4/m/n/10 .BiocParallelPa
ram_prototype\T1/ptm/m/n/10 , and the func-tion \T1/zi4/m/n/10 .prototype_updat
e()

Overfull \hbox (19.23944pt too wide) in paragraph at lines 2256--2261
[]\T1/zi4/m/n/10 bpstop,BiocParallelParam-method \T1/ptm/m/n/10 (\T1/zi4/m/n/10
 .bpstop_impl()\T1/ptm/m/n/10 ) en-sures ap-pro-pri-ate clean-up of stopped

Overfull \hbox (20.02087pt too wide) in paragraph at lines 2262--2268
[]\T1/zi4/m/n/10 bplapply,ANY,BiocParallelParam-method \T1/ptm/m/n/10 and \T1/z
i4/m/n/10 bpiterate,ANY,BiocParallelParam-method
[28]
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\T1/zi4/m/n/10 length() \T1/ptm/m/n/10 (num-ber of nodes). In ad-di-tion, the b
ack-ends must sup-port \T1/zi4/m/n/10 .send_to() \T1/ptm/m/n/10 and \T1/zi4/m/n
/10 .recv_any()

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\T1/ptm/m/n/10 man-ager and \T1/zi4/m/n/10 .send()\T1/ptm/m/n/10 , \T1/zi4/m/n/
10 .recv()\T1/ptm/m/n/10 , and \T1/zi4/m/n/10 .close() \T1/ptm/m/n/10 worker me
th-ods. De-fault \T1/zi4/m/n/10 .send_all() \T1/ptm/m/n/10 and \T1/zi4/m/n/10 .
recv_all()
[29] (/usr/share/texlive/texmf-dist/tex/latex/base/utf8.def)
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\T1/ptm/m/n/10 page (e.g., \T1/zi4/m/n/10 ?bpisup\T1/ptm/m/n/10 ): [][]\T1/zi4/
m/n/10 bpworkers[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 bpnworkers[][][]\T1/p
tm/m/n/10 , [][]\T1/zi4/m/n/10 bpstart[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10
 bpstop[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 bpisup[][][]\T1/ptm/m/n/10 , [
][]\T1/zi4/m/n/10 bpbackend[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 bpbackend<
-[][][]\T1/ptm/m/n/10 ,
[30] (/usr/share/texlive/texmf-dist/tex/latex/base/utf8.def) [31] [32]
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[]\T1/zi4/m/n/10 logical(1) \T1/ptm/m/n/10 Ex-port \T1/zi4/m/n/10 base::options
() \T1/ptm/m/n/10 from man-ager to work-ers? De-fault \T1/zi4/m/n/10 TRUE\T1/pt
m/m/n/10 . 

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[]\T1/zi4/m/n/10 character(1) \T1/ptm/m/n/10 Host name of man-ager node. See 'G
lobal Op-tions', in [][]\T1/zi4/m/n/10 SnowParam[][][]\T1/ptm/m/n/10 . 
[34]
Overfull \hbox (15.6081pt too wide) in paragraph at lines 2756--2769
\T1/ptm/m/n/10 limit in \T1/ptm/m/it/10 R\T1/ptm/m/n/10 ) mi-nus the num-ber of
 open con-nec-tions as re-turned by \T1/zi4/m/n/10 nrow(showConnections(all=TRU
E))\T1/ptm/m/n/10 .

Overfull \hbox (28.01889pt too wide) in paragraph at lines 2756--2769
\T1/ptm/m/n/10 The op-tion \T1/zi4/m/n/10 mc.cores \T1/ptm/m/n/10 can be used t
o spec-ify an ar-bi-trary num-ber of work-ers, e.g., \T1/zi4/m/n/10 options(mc.
cores=4L)\T1/ptm/m/n/10 ;

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\T1/ptm/m/n/10 seed of the mas-ter pro-cess af-ter se-lect-ing the L'Ecuyer gen
-er-a-tor. See ?\T1/zi4/m/n/10 clusterSetRNGStream
[35]
Overfull \hbox (4.78088pt too wide) in paragraph at lines 2862--2863
[]\T1/zi4/m/n/10 MulticoreParam(workers = multicoreWorkers(),tasks = 0L,stop.on
.error = FALSE,tasks

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\T1/zi4/m/n/10 = 0L,progressbar = FALSE,RNGseed = NULL,timeout = Inf,exportglob
als=TRUE,log = FALSE,threshold

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\T1/zi4/m/n/10 = "INFO",logdir = NA_character_,resultdir = NA_character_,manage
r.hostname = NA_character_,manager.port

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[]\T1/zi4/m/n/10 bplog(x)\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bplog(x) <-value\T1/pt
m/m/n/10 : Get or set the value to en-able log-ging. \T1/zi4/m/n/10 value \T1/p
tm/m/n/10 must be a \T1/zi4/m/n/10 logical(1)\T1/ptm/m/n/10 . 
[36] [37]
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[]\T1/ptm/m/n/10 Make this the de-fault \T1/zi4/m/n/10 BiocParallelParam \T1/pt
m/m/n/10 for sub-se-quent eval-u-a-tions? If \T1/zi4/m/n/10 FALSE\T1/ptm/m/n/10
 ,
[39]
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\T1/ptm/m/n/10 tomiza-tions dur-ing start-up (e.g., in an \T1/zi4/m/n/10 .Rprof
ile \T1/ptm/m/n/10 file) with, for in-stance, \T1/zi4/m/n/10 options(MulticoreP
aram=quote(MulticoreParam(workers=8)))\T1/ptm/m/n/10 . 

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\T1/ptm/m/n/10 e.g., \T1/zi4/m/n/10 options(MulticoreParam=MulticoreParam()) \T
1/ptm/m/n/10 and then the value of \T1/zi4/m/n/10 registered(bpparamClass)\T1/p
tm/m/n/10 . 
[40] (/usr/share/texlive/texmf-dist/tex/latex/base/utf8.def) [41]
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[]\T1/zi4/m/n/10 logical(1) \T1/ptm/m/n/10 Ex-port \T1/zi4/m/n/10 base::options
() \T1/ptm/m/n/10 from man-ager to work-ers? De-fault \T1/zi4/m/n/10 TRUE\T1/pt
m/m/n/10 . 

Overfull \hbox (41.388pt too wide) in paragraph at lines 3544--3555
\T1/ptm/m/n/10 coded limit in \T1/ptm/m/it/10 R\T1/ptm/m/n/10 ) mi-nus the num-
ber of open con-nec-tions as re-turned by \T1/zi4/m/n/10 nrow(showConnections(a
ll=TRUE))\T1/ptm/m/n/10 .

Overfull \hbox (28.01889pt too wide) in paragraph at lines 3544--3555
\T1/ptm/m/n/10 The op-tion \T1/zi4/m/n/10 mc.cores \T1/ptm/m/n/10 can be used t
o spec-ify an ar-bi-trary num-ber of work-ers, e.g., \T1/zi4/m/n/10 options(mc.
cores=4L)\T1/ptm/m/n/10 ;
[43]
Overfull \hbox (0.16803pt too wide) in paragraph at lines 3614--3622
\T1/ptm/m/n/10 seed of the mas-ter pro-cess af-ter se-lect-ing the L'Ecuyer gen
-er-a-tor. See ?\T1/zi4/m/n/10 clusterSetRNGStream

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[]\T1/ptm/m/n/10 NOTE: The \T1/zi4/m/n/10 PSOCK \T1/ptm/m/n/10 clus-ter from th
e \T1/zi4/m/n/10 parallel \T1/ptm/m/n/10 pack-age does not sup-port clus-ter op
-tions \T1/zi4/m/n/10 scriptdir

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[]\T1/zi4/m/n/10 SnowParam(workers = snowWorkers(),type=c("SOCK","MPI"),tasks =
 0L,stop.on.error =

Overfull \hbox (1.78088pt too wide) in paragraph at lines 3646--3647
\T1/zi4/m/n/10 FALSE,progressbar = FALSE,RNGseed = NULL,timeout = Inf,exportglo
bals = TRUE,log

Overfull \hbox (24.28088pt too wide) in paragraph at lines 3646--3647
\T1/zi4/m/n/10 = FALSE,threshold = "INFO",logdir = NA_character_,resultdir = NA
_character_,jobname
[44]
Overfull \hbox (6.45909pt too wide) in paragraph at lines 3678--3681
[]\T1/zi4/m/n/10 bplog(x)\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bplog(x) <-value\T1/pt
m/m/n/10 : Get or set the value to en-able log-ging. \T1/zi4/m/n/10 value \T1/p
tm/m/n/10 must be a \T1/zi4/m/n/10 logical(1)\T1/ptm/m/n/10 . 
[45]
Overfull \hbox (6.63976pt too wide) in paragraph at lines 3798--3802
[]\T1/zi4/m/n/10 as(from,"SnowParam")\T1/ptm/m/n/10 : Cre-ates a \T1/zi4/m/n/10
 SnowParam \T1/ptm/m/n/10 ob-ject from a \T1/zi4/m/n/10 SOCKcluster \T1/ptm/m/n
/10 or \T1/zi4/m/n/10 spawnedMPIcluster

Overfull \hbox (17.99757pt too wide) in paragraph at lines 3820--3826
[]\T1/ptm/m/n/10 The de-fault man-ager host-name is "lo-cal-host" when the num-
ber of work-ers are spec-i-fied as a \T1/zi4/m/n/10 numeric(1)\T1/ptm/m/n/10 ,

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\T1/ptm/m/n/10 vari-able \T1/zi4/m/n/10 MASTER\T1/ptm/m/n/10 , or the global op
-tion \T1/zi4/m/n/10 bphost \T1/ptm/m/n/10 (e.g., \T1/zi4/m/n/10 options(bphost
=Sys.info()[["nodename"]])\T1/ptm/m/n/10 . 
[46]
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[]\T1/zi4/m/it/10 .recv_all,TransientMulticoreParam-method 

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[]\T1/zi4/m/it/10 .recv_any,TransientMulticoreParam-method 

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[]\T1/zi4/m/it/10 .send_to,TransientMulticoreParam-method 
[49]
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[]\T1/zi4/m/it/10 bpaggregate,data.frame,BiocParallelParam-method 

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[]\T1/zi4/m/it/10 bpaggregate,formula,BiocParallelParam-method 

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[]\T1/zi4/m/it/10 bpaggregate,matrix,BiocParallelParam-method 

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[]\T1/zi4/m/it/10 bpbackend,TransientMulticoreParam-method 

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[]\T1/zi4/m/it/10 bpbackend<-,DoparParam,SOCKcluster-method 

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[]\T1/zi4/m/it/10 bpexportglobals,BiocParallelParam-method 

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[]\T1/zi4/m/it/10 bpexportglobals<-,BiocParallelParam,logical-method 

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[]\T1/zi4/m/it/10 bpiterate,ANY,ANY,BatchJobsParam-method 

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[]\T1/zi4/m/it/10 bpiterate,ANY,ANY,BatchtoolsParam-method 

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[]\T1/zi4/m/it/10 bpiterate,ANY,ANY,BiocParallelParam-method 

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[]\T1/zi4/m/it/10 bpjobname<-,BiocParallelParam,character-method 
[50]
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[]\T1/zi4/m/it/10 bplogdir<-,BatchtoolsParam,character-method 

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[]\T1/zi4/m/it/10 bplogdir<-,BiocParallelParam,character-method 

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[]\T1/zi4/m/it/10 bplogdir<-,SerialParam,character-method 

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[]\T1/zi4/m/it/10 bpprogressbar,BiocParallelParam-method 

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[]\T1/zi4/m/it/10 bpprogressbar<-,BiocParallelParam,logical-method 

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[]\T1/zi4/m/it/10 bpresultdir<-,BiocParallelParam,character-method 

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[]\T1/zi4/m/it/10 bpRNGseed<-,BatchtoolsParam,numeric-method 

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[]\T1/zi4/m/it/10 bpRNGseed<-,BiocParallelParam,NULL-method 

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[]\T1/zi4/m/it/10 bpRNGseed<-,BiocParallelParam,numeric-method 

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[]\T1/zi4/m/it/10 bpstart,TransientMulticoreParam-method 
[51]
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[]\T1/zi4/m/it/10 bpstopOnError,BiocParallelParam-method 

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[]\T1/zi4/m/it/10 bpstopOnError<-,BiocParallelParam,logical-method 

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[]\T1/zi4/m/it/10 bpstopOnError<-,DoparParam,logical-method 

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[]\T1/zi4/m/it/10 bptasks<-,BiocParallelParam,numeric-method 

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[]\T1/zi4/m/it/10 bpthreshold<-,SerialParam,character-method 

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[]\T1/zi4/m/it/10 bpthreshold<-,SnowParam,character-method 

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[]\T1/zi4/m/it/10 bptimeout<-,BiocParallelParam,numeric-method 

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[]\T1/zi4/m/it/10 bpworkers<-,MulticoreParam,numeric-method 

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[]\T1/zi4/m/it/10 bpworkers<-,SnowParam,character-method 

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[]\T1/zi4/m/it/10 coerce,spawnedMPIcluster,SnowParam-method 
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