Files to be deleted

[nickp60]

LEts use this issue as a list of files that we can likely get rid of.

• RGI's BAM output and index

[nickp60]

• RGI's localDB/

[nickp60]

• sampl2makers tmp_ directories? maybe this only exists in failed jobs?

[nickp60]

• .quast

[nickp60]

SPAdes:

• 21M /data/brinkvd/isabl/data_lake/analyses/00/53/53/spades_1064K_IGO_11592_240/K33
• 22M /data/brinkvd/isabl/data_lake/analyses/00/53/53/spades_1064K_IGO_11592_240/K21
• 1.0K /data/brinkvd/isabl/data_lake/analyses/00/53/53/spades_1064K_IGO_11592_240/tmp
• 1.9G /data/brinkvd/isabl/data_lake/analyses/00/53/53/spades_1064K_IGO_11592_240/corrected
• 79M /data/brinkvd/isabl/data_lake/analyses/00/53/53/spades_1064K_IGO_11592_240/misc
• 1.0K /data/brinkvd/isabl/data_lake/analyses/00/53/53/spades_1064K_IGO_11592_240/pipeline_state
• 802M /data/brinkvd/isabl/data_lake/analyses/00/53/53/spades_1064K_IGO_11592_240/K55

[nickp60]

• metawrap BAMs/SAMs tmp_1064K_IGO_11592_240.bam

[nickp60]

metawrap index files; maybe keep the bed file?:

• /data/brinkvd/isabl/data_lake/analyses/00/58/58/metawrap/rawbinning_1064K_IGO_11592_240/concoct/work_files/ total 306M drwxrwxr-x 3 watersn microbiome 4.0K Nov 7 09:48 . drwxrwxr-x 4 watersn microbiome 4.0K Nov 2 01:06 .. -rw-rw-r-- 1 watersn microbiome 6.5M Nov 2 00:43 assembly_10K.bed -rw-rw-r-- 1 watersn microbiome 77M Nov 2 00:43 assembly_10K.fa -rw-rw-r-- 1 watersn microbiome 78M Nov 2 00:40 assembly.fa -rw-rw-r-- 1 watersn microbiome 28K Nov 2 00:41 assembly.fa.amb -rw-rw-r-- 1 watersn microbiome 4.9M Nov 2 00:41 assembly.fa.ann -rw-rw-r-- 1 watersn microbiome 74M Nov 2 00:41 assembly.fa.bwt -rw-rw-r-- 1 watersn microbiome 19M Nov 2 00:41 assembly.fa.pac -rw-rw-r-- 1 watersn microbiome 37M Nov 2 00:41 assembly.fa.sa -rw-rw-r-- 1 watersn microbiome 3.5M Nov 2 00:45 concoct_depth.txt drwxrwxr-x 2 watersn microbiome 4.0K Nov 2 01:06 concoct_out -rw-rw-r-- 1 watersn microbiome 6.6M Nov 2 00:43 tmp_1064K_IGO_11592_240.bam.bai

[nickp60]

actually, all metawrap work_files

[nickp60]

kraken.out

[nickp60]

megahit's intermediate_contigs folder

[nickp60]

metaviralspades temp files