simon boutry

Exact same error for me and unfortunately @caitiecollins suggestions do not work for me neither Thanks in advance for new solutions

Hello, I have the same problem, path_input_file=/work/gr-fe/archive/sample_repository/all_exome_gvcfs_hg38/FVH/exomes #patient GVCF path_name_individu=/work/gr-fe/sboutry/excalibur/input/11_12_23_gvcf_FVH/patient_name.txt path_output=/work/gr-fe/sboutry/excalibur/input/11_12_23_gvcf_FVH/patient_data.vcf.gz tmp_folder=/scratch/sboutry/logs/combine_gvcf_file nbr_groups=2 #Path to database and programs REF=/work/gr-fe/saadat/Reference_Genome/GRCH38_no_alt/GCA_000001405.15_GRCh38_no_alt_analysis_set.fa.gz BCFTOOLS=/work/gr-fe/sboutry/tools/bcftools/install/bin/bcftools export BCFTOOLS_PLUGINS=/work/gr-fe/sboutry/tools/bcftools/bcftools/plugins TABIX=/work/gr-fe/sboutry/tools/tabix/tabix-0.2.6/tabix GATK=/work/gr-fe/sboutry/tools/gatk/gatk-4.2.2.0/gatk cd ${path_input_file} ${GATK} --java-options "-Xmx180G -XX:ParallelGCThreads=36"...

I just rename the file patient_name.txt patient_name.gvcfs.list And it worked, in case that can help some

Same problem, all anotation from VEP and other plugins worked, but LOFTEE do not seems to annotate with LoF, and no errors..

Hello, Same problem here with R 4.3.1 and gcc 8.5.0 I tried the cran, the github install and also directly via the tar.gz SKAT_2.2.4.tar.gz, but I have the same error...

Yes, it worked with library(devtools) install_github("mykmal/SKAT") thanks so much

I have the same problem, my package use all function from clusterProfiler since 3 years, and this problem is brand new, Any suggestions on how to fix it, please? Thanks...

I tried, indeed this will work library(clusterProfiler) data(geneList, package="DOSE") gene 2] enrichWP(gene, organism = "Homo sapiens") But I still have a problem (that didn't existed before) ══ Failed tests ════════════════════════════════════════════════════════════════...