error while reconstructing the model using mylibrary

[Xingchen-Bian]

Dear Daniel,

In the carveme tutorial, it says "you can provide your own media library for gap-filling." The command line is $ carve genome.faa --gapfill X,Y,Z --mediadb mylibrary.tsv. I just confused what X,Y,Z represent? I input all the medium name in the first column of My_library.csv, but it doesn't work. The error is "carve: error: unrecognized arguments: M9_aspL, M9_pro__L, M9_alaD, M9_xylD, M9_gluL, M9_mal, M9_ribD, M9_asnL, M9_glnL, M9_cit, M9_tcb, M9_thr__L, M9_alaL, M9_methsucc, M9_malD, M9_malL, M9_gly_proL, M9_caproic, M9_quln, M9_sebacid, M9_arg__L, M9_hisL, M9_4hpro_LT, M9_leuL, M9_phe__L, M9_valL, M9_crn, M9_ptrc".

My library is based on M9 medium and I would like to add carbon sources that could support the bacteria growth in Biolog assay. Attached is the file My_library.csv. When I reconstruct the model, I use My_library.tsv.

Could you help with this issue? My_library.csv

[Xingchen-Bian]

It has been solved! Space sholud not be inserted after each comma.