http://geneontology.org/docs/download-ontology/
# Full
wget http://purl.obolibrary.org/obo/go/go-basic.obo
#get ftp://ftp.geneontology.org/go/ontology/gene_ontology.obo
# Subsets
wget http://current.geneontology.org/ontology/subsets/goslim_generic.obo
wget http://current.geneontology.org/ontology/subsets/goslim_pir.obo
# ...
https://docs.conda.io/en/latest/miniconda.html
conda create -n goslim-analysis coreutils=8.31 perl-go-perl=0.15 r-ggplot2=3.1.1 r-rcolorbrewer=1.1_2 r-optparse
conda activate goslim-analysis
The mandatory column are: id (here col1), logFC (here col3) and GO numbers separated by space (here col4)
comp20180_c0_seq1 1.258866547 0.08025349 GO:0005634 GO:0003682 GO:0003677 GO:0005515 GO:0010468 GO:0006355 GO:0006351
comp2018_c0_seq1 -3.081078296 1.76E-06 GO:0005739 GO:0005634 GO:0043565 GO:0003700 GO:0008270 GO:0007517 GO:0006351
comp2706_c0_seq1 -7.408903924 8.79E-05 GO:0031225
comp27949_c0_seq1 -2.251179759 0.000217982 GO:0016021 GO:0005886 GO:0005509 GO:0005515 GO:0021987 GO:0007157 GO:0035329 GO:0007156 GO:0022008
./goslimWrapper.sh table_with_GO_number.tab
Or something like that if you have plenty of files (here I'm filtering on the filename ended by U.tab or A.tab)
conda activate goslim-analysis
for file_i in *[UA].tab; do echo $file_i; srun "../../../script/goslim-analysis/goslimWrapper.sh $file_i" & echo "next"; done