search

vlothec / TRASH

RepeatIdentifier
MIT License
50 stars 3 forks source link

Issue with crayon package #10

Open edhollox opened 1 year ago

edhollox commented 1 year ago

Hi, on running the softwarecseems to look for a crayon package/function which is not in trash/src

Any help would be appreciated!

edhollox@edhollox-Latitude-E7450:~/TRASH$ sh TRASH_run.sh MUC5B_hg38.fa TRASH_run.sh: 3: Bad substitution /home/edhollox/TRASH TRASH will be run with MUC5B_hg38.fa arguments [1] "start" [1] "2023-06-27 10:17:18 BST" [1] "attaching function from: /home/edhollox/TRASH/src/fn_circos.R" [1] "attaching function from: /home/edhollox/TRASH/src/fn_consensus_N.R" [1] "attaching function from: /home/edhollox/TRASH/src/fn_draw_scaffold_repeat_plots.R" [1] "attaching function from: /home/edhollox/TRASH/src/fn_edit_distance.R" [1] "attaching function from: /home/edhollox/TRASH/src/fn_export_gff.R" [1] "attaching function from: /home/edhollox/TRASH/src/fn_extract_all_repeats.R" [1] "attaching function from: /home/edhollox/TRASH/src/fn_extract_kmers.R" [1] "attaching function from: /home/edhollox/TRASH/src/fn_hash_and_reverse.R" [1] "attaching function from: /home/edhollox/TRASH/src/fn_HOR_wrapper.R" [1] "attaching function from: /home/edhollox/TRASH/src/fn_kmer_compare.R" [1] "attaching function from: /home/edhollox/TRASH/src/fn_movav.R" [1] "attaching function from: /home/edhollox/TRASH/src/fn_new_distance_N.R" [1] "attaching function from: /home/edhollox/TRASH/src/fn_plot_edit.R" [1] "attaching function from: /home/edhollox/TRASH/src/fn_plot_rep.R" [1] "attaching function from: /home/edhollox/TRASH/src/fn_repeat_identifier.R" [1] "attaching function from: /home/edhollox/TRASH/src/fn_repetitiveness.R" [1] "attaching function from: /home/edhollox/TRASH/src/fn_rev_comp_string.R" [1] "/home/edhollox/TRASH/libs" Error: package or namespace load failed for ‘Biostrings’ in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]): there is no package called ‘crayon’ Execution halted

josecarballo87 commented 1 year ago

Same problem, were you able to solve it?

cabbagesofdoom commented 6 months ago

Hi @edhollox Did you git clone and then run the install script, or download the compiled version? I tried the latter first and got the same error. Then I cleared everything, made a new conda environment, and took the github clone and install script option, and it seems to be running fine. Rich