ulimit -n 10000

# STAR --version
## 2.7.3a

# stCuSTr-D_tr_representatives.fasta
STAR --runThreadN 30 --runMode genomeGenerate --genomeDir ../intermediate/Desiree/ \
--genomeFastaFiles ../../../_S_03_stCuSTr/_A_03.2_components/output/fasta_1A_rep-per-cv/stCuSTr-D_tr_representatives.fasta --limitGenomeGenerateRAM=242371378560

mv Log.out ../intermediate/indexDesiree.log

# StPGSC4.04n_seq_2_PGSC-t-rep_ITAG-cds_gff-2019-04-23.fasta
STAR --runThreadN 30 --runMode genomeGenerate --genomeDir ../intermediate/gff-merged/ \
--genomeFastaFiles ../../_A_01_GC_content-count/input/StPGSC4.04n_seq_2_PGSC-t-rep_ITAG-cds_gff-2019-04-23.fasta --limitGenomeGenerateRAM=242371378560

mv Log.out ../intermediate/indexGFFmerged.log


# PGSC_DM_v3.4_transcript-update_representative.fasta
STAR --runThreadN 30 --runMode genomeGenerate --genomeDir ../intermediate/PGSC/ \
--genomeFastaFiles ../input/PGSC_DM_v3.4_transcript-update_representative.fasta --limitGenomeGenerateRAM=242371378560

mv Log.out ../intermediate/indexPGSC.log