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This page was generated on 2023-11-02 11:40:46 -0400 (Thu, 02 Nov 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.2 LTS)x86_644.3.1 (2023-06-16) -- "Beagle Scouts" 4729
palomino4Windows Server 2022 Datacenterx644.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" 4463
lconwaymacOS 12.6.5 Montereyx86_644.3.1 Patched (2023-06-17 r84564) -- "Beagle Scouts" 4478
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch644.3.1 (2023-06-16) -- "Beagle Scouts" 4464
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 921/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
GUIDEseq 1.32.0  (landing page)
Lihua Julie Zhu
Snapshot Date: 2023-11-01 14:05:06 -0400 (Wed, 01 Nov 2023)
git_url: https://git.bioconductor.org/packages/GUIDEseq
git_branch: RELEASE_3_18
git_last_commit: d675d44
git_last_commit_date: 2023-10-24 10:45:51 -0400 (Tue, 24 Oct 2023)
nebbiolo2Linux (Ubuntu 22.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.6.5 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.1 Ventura / arm64see weekly results here
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    ERROR  skipped

BUILD results for GUIDEseq on kunpeng2


To the developers/maintainers of the GUIDEseq package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GUIDEseq.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results

Summary

Package: GUIDEseq
Version: 1.32.0
Command: /home/biocbuild/R/R-4.3.1/bin/R CMD build --keep-empty-dirs --no-resave-data GUIDEseq
StartedAt: 2023-11-02 01:55:44 -0000 (Thu, 02 Nov 2023)
EndedAt: 2023-11-02 01:57:42 -0000 (Thu, 02 Nov 2023)
EllapsedTime: 118.1 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R-4.3.1/bin/R CMD build --keep-empty-dirs --no-resave-data GUIDEseq
###
##############################################################################
##############################################################################


* checking for file ‘GUIDEseq/DESCRIPTION’ ... OK
* preparing ‘GUIDEseq’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘GUIDEseq.Rnw’ using Sweave
Loading required package: GenomicRanges
Loading required package: stats4
Loading required package: BiocGenerics

Attaching package: ‘BiocGenerics’

The following objects are masked from ‘package:stats’:

    IQR, mad, sd, var, xtabs

The following objects are masked from ‘package:base’:

    Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append,
    as.data.frame, basename, cbind, colnames, dirname, do.call,
    duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
    lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
    pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
    tapply, union, unique, unsplit, which.max, which.min

Loading required package: S4Vectors

Attaching package: ‘S4Vectors’

The following object is masked from ‘package:utils’:

    findMatches

The following objects are masked from ‘package:base’:

    I, expand.grid, unname

Loading required package: IRanges
Loading required package: GenomeInfoDb
computing coverage for plus strand ...
computing coverage for minus strand ...
call peaks ...
finding local max for chromosome: chr13
Loading required package: BSgenome
Loading required package: Biostrings
Loading required package: XVector

Attaching package: ‘Biostrings’

The following object is masked from ‘package:base’:

    strsplit

Loading required package: BiocIO
Loading required package: rtracklayer

Attaching package: ‘rtracklayer’

The following object is masked from ‘package:BiocIO’:

    FileForFormat

Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Remove duplicate reads ...

Peak calling ...

computing coverage for plus strand ...
computing coverage for minus strand ...
call peaks ...
finding local max for chromosome: chr13
combine plus and minus peaks ... 

keep peaks not in merged.gr but present in both peaks1 and peaks2

offtarget analysis ...

Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Warning in searchHits(gRNAs = gRNAs1, PAM = PAM, PAM.pattern = PAM.pattern,  :
  No matching found, please check your input sequence, and make
            sure you are using the right genome. You can also alter your 
            search criteria such as increasing max.mismatch!
Add sequence depth information. 

Get the number of unique UMIs for each offtarget. 

Please check output file in directory bowtie2.HEK293_site4_chr13.sort_HEK239_site4min1window20step20distance40

Error: processing vignette 'GUIDEseq.Rnw' failed with diagnostics:
Running 'texi2dvi' on 'GUIDEseq.tex' failed.
LaTeX errors:
! Missing \endcsname inserted.
<to be read again> 
                   \IeC 
l.631 \bibitem{Rodríguez et al., 2021}
                                       Rodríguez TC, Dadafarin S, Pratt HE,...
! Emergency stop.
<to be read again> 
                   \IeC 
l.631 \bibitem{Rodríguez et al., 2021}
                                       Rodríguez TC, Dadafarin S, Pratt HE,...
!  ==> Fatal error occurred, no output PDF file produced!
--- failed re-building ‘GUIDEseq.Rnw’

SUMMARY: processing the following file failed:
  ‘GUIDEseq.Rnw’

Error: Vignette re-building failed.
Execution halted