readme/archive: rm large files from results archive

README_ARCHIVE.md

@@ -25,9 +25,7 @@ For each sample, the following files were saved (in `<sample>/results/`):
 - assembly
   - "raw" contigs: `assembly/*/*/ASSEMBLY.fasta`
   - polished contigs: `assembly/*/*/ASSEMBLY.POLISHED.fasta` (for LR and Hy only)
-    - polishing rounds: `assembly/*/*/POLISHING_*/ASSEMBLY.fasta`
 - assembly mapping
-  - BAM files: `mapping/*/*/*/ASSEMBLY.POLISHED.*.bam`
   - mapping rate summary stats: `mapping/*/mappability.tsv`
 - annotation
   - protein prediction w/ Prodigal

config/archive/results_archive_incl.txt

@@ -17,60 +17,19 @@ qc/metag/lr/NanoStats.txt
 # assembly: raw, polished, polishing steps
 assembly/hy/metaspadeshybrid/ASSEMBLY.fasta
 assembly/hy/metaspadeshybrid/ASSEMBLY.POLISHED.fasta
-assembly/hy/metaspadeshybrid/POLISHING_raconSR1/ASSEMBLY.fasta
-assembly/hy/metaspadeshybrid/POLISHING_raconSR2/ASSEMBLY.fasta
-assembly/hy/metaspadeshybrid/POLISHING_raconSR3/ASSEMBLY.fasta
-assembly/hy/metaspadeshybrid/POLISHING_raconSR4/ASSEMBLY.fasta
-assembly/hy/metaspadeshybrid/POLISHING_raconSR5/ASSEMBLY.fasta
 assembly/hy/operamsmegahit/ASSEMBLY.fasta
 assembly/hy/operamsmegahit/ASSEMBLY.POLISHED.fasta
-assembly/hy/operamsmegahit/POLISHING_raconSR1/ASSEMBLY.fasta
-assembly/hy/operamsmegahit/POLISHING_raconSR2/ASSEMBLY.fasta
-assembly/hy/operamsmegahit/POLISHING_raconSR3/ASSEMBLY.fasta
-assembly/hy/operamsmegahit/POLISHING_raconSR4/ASSEMBLY.fasta
-assembly/hy/operamsmegahit/POLISHING_raconSR5/ASSEMBLY.fasta
 assembly/hy/operamsmetaspades/ASSEMBLY.fasta
 assembly/hy/operamsmetaspades/ASSEMBLY.POLISHED.fasta
-assembly/hy/operamsmetaspades/POLISHING_raconSR1/ASSEMBLY.fasta
-assembly/hy/operamsmetaspades/POLISHING_raconSR2/ASSEMBLY.fasta
-assembly/hy/operamsmetaspades/POLISHING_raconSR3/ASSEMBLY.fasta
-assembly/hy/operamsmetaspades/POLISHING_raconSR4/ASSEMBLY.fasta
-assembly/hy/operamsmetaspades/POLISHING_raconSR5/ASSEMBLY.fasta
 assembly/lr/flye/ASSEMBLY.fasta
 assembly/lr/flye/ASSEMBLY.POLISHED.fasta
-assembly/lr/flye/POLISHING_raconLR1/ASSEMBLY.fasta
-assembly/lr/flye/POLISHING_raconLR1_raconSR1/ASSEMBLY.fasta
-assembly/lr/flye/POLISHING_raconLR1_raconSR2/ASSEMBLY.fasta
-assembly/lr/flye/POLISHING_raconLR1_raconSR3/ASSEMBLY.fasta
-assembly/lr/flye/POLISHING_raconLR1_raconSR4/ASSEMBLY.fasta
-assembly/lr/flye/POLISHING_raconLR1_raconSR4_medakaLR1/ASSEMBLY.fasta
 assembly/lr/raven/ASSEMBLY.fasta
 assembly/lr/raven/ASSEMBLY.POLISHED.fasta
-assembly/lr/raven/POLISHING_raconLR1/ASSEMBLY.fasta
-assembly/lr/raven/POLISHING_raconLR1_raconSR1/ASSEMBLY.fasta
-assembly/lr/raven/POLISHING_raconLR1_raconSR2/ASSEMBLY.fasta
-assembly/lr/raven/POLISHING_raconLR1_raconSR3/ASSEMBLY.fasta
-assembly/lr/raven/POLISHING_raconLR1_raconSR4/ASSEMBLY.fasta
-assembly/lr/raven/POLISHING_raconLR1_raconSR4_medakaLR1/ASSEMBLY.fasta
 assembly/sr/megahit/ASSEMBLY.fasta
 assembly/sr/metaspades/ASSEMBLY.fasta
 # mapping: metag
-mapping/metag/hy/metaspadeshybrid/ASSEMBLY.POLISHED.hy.bam
-mapping/metag/hy/operamsmegahit/ASSEMBLY.POLISHED.hy.bam
-mapping/metag/hy/operamsmetaspades/ASSEMBLY.POLISHED.hy.bam
-mapping/metag/lr/flye/ASSEMBLY.POLISHED.lr.bam
-mapping/metag/lr/raven/ASSEMBLY.POLISHED.lr.bam
-mapping/metag/sr/megahit/ASSEMBLY.POLISHED.sr.bam
-mapping/metag/sr/metaspades/ASSEMBLY.POLISHED.sr.bam
 mapping/metag/mappability.tsv
 # mapping: metat
-mapping/metat/hy/metaspadeshybrid/ASSEMBLY.POLISHED.sr.bam
-mapping/metat/hy/operamsmegahit/ASSEMBLY.POLISHED.sr.bam
-mapping/metat/hy/operamsmetaspades/ASSEMBLY.POLISHED.sr.bam
-mapping/metat/lr/flye/ASSEMBLY.POLISHED.sr.bam
-mapping/metat/lr/raven/ASSEMBLY.POLISHED.sr.bam
-mapping/metat/sr/megahit/ASSEMBLY.POLISHED.sr.bam
-mapping/metat/sr/metaspades/ASSEMBLY.POLISHED.sr.bam
 mapping/metat/mappability.tsv
 # annotation: prodigal
 annotation/prodigal/hy/metaspadeshybrid/proteins.faa