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package or namespace load failed for ‘UpSetR’ #360
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Could you provide the whole error message or the |
I'm not using conda. Here is the whole error message: Error executing process > 'NFCORE_CHIPSEQ:CHIPSEQ:MACS2_CONSENSUS (H3K9)' Caused by: Command executed: sort -T '.' -k1,1 -k2,2n CONTR1_H3K9_peaks.broadPeak CONTR2_H3K9_peaks.broadPeak CONTR3_H3K9_peaks.broadPeak frim7_1_H3K9_peaks.broadPeak frim7_2_H3K9_peaks.broadPeak frim7_3_H3K9_peaks.broadPeak pom_1_H3K9_peaks.broadPeak pom_2_H3K9_peaks.broadPeak pom_3_H3K9_peaks.broadPeak macs2_merged_expand.py awk -v FS=' ' -v OFS=' ' 'FNR > 1 { print $1, $2, $3, $4, "0", "+" }' H3K9.consensus_peaks.boolean.txt > H3K9.consensus_peaks.bed echo -e "GeneID Chr Start End Strand" > H3K9.consensus_peaks.saf plot_peak_intersect.r -i H3K9.consensus_peaks.boolean.intersect.txt -o H3K9.consensus_peaks.boolean.intersect.plot.pdf echo "H3K9.consensus_peaks.bed H3K9/H3K9.consensus_peaks.bed" > H3K9.consensus_peaks.antibody.txt cat <<-END_VERSIONS > versions.yml Command exit status: Command output: Command error: Work dir: Tip: view the complete command output by changing to the process work dir and entering the command |
I think that it could be that you have a local version of the R package installed in your environment which overwrites the one in the image (which actually meets the requirements since is 1.14). If this is the case, maybe it will be worth to remove the local version of the |
I closed the issue now as it had no activity, if you need any further help feel free to reopen it. |
Description of the bug
I keep getting the following error using nextflow version 22.10.4 and chipseq v2.0.0
Does anyone has any idea what's going on ?
Thanks.
Command error:
Error: package or namespace load failed for ‘UpSetR’ in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]):
namespace ‘scales’ 1.1.1 is being loaded, but >= 1.2.0 is required
Execution halted
Command used and terminal output
nextflow run nf-core/chipseq --input sample.csv --outdir test --fasta Arabidopsis_thaliana.TAIR10.dna.toplevel56.fa.gz --gff Arabidopsis_thaliana.TAIR10.56.gff.gz --macs_gsize 119667750 --read_length 150 --save_macs_pileup TRUE -profile ifb_core
Relevant files
No response
System information
No response
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