added directory structure

README.md

@@ -265,7 +265,57 @@ R Core Team (2019). R: A Language and Environment for Statistical Computing. <ht
 
 `/vol/cb/projects/112020_tbg_backmap`
 
-## Directory structure
+## Directory structure (as of date 01/06/2021)
+
+```
+.
+├── dataset
+│   ├── dgal_1.paired.confilter.fq
+│   ├── dgal_1.paired.confilter.fq.gz
+│   ├── dgal_2.paired.confilter.fq
+│   ├── dgal_2.paired.confilter.fq.gz
+│   ├── dgal.confilter.fq
+│   ├── dgal.confilter.fq.gz
+│   ├── dgal_ra_pb-target-and-other_ill-confilter.blobfilter.rmmt_sspace-lr3_lrgc3_pg3_pilon_3.fasta
+│   ├── dgal_ra_pb-target-and-other_ill-confilter.blobfilter.rmmt_sspace-lr3_lrgc3_pg3_pilon_3.fasta.gz
+│   ├── dgal_ra_pb-target-and-other_ill-confilter.blobfilter.rmmt_sspace-lr3_lrgc3_pg3_pilon_3.fasta.pb.sort.bam
+│   ├── dgal_ra_pb-target-and-other_ill-confilter.blobfilter.rmmt_sspace-lr3_lrgc3_pg3_pilon_3.fasta.sort.bam
+│   ├── nohup.out
+│   ├── pacbio_gal.target-and-other.blobfilter.fastq
+│   ├── pacbio_gal.target-and-other.blobfilter.fastq.gz
+│   └── Test_datasets.zip
+├── environment-dev.yml
+├── environment-test.yml
+├── environment.yml
+├── img
+│   ├── RallNew.png
+│   └── RallOld.png
+├── nextflow
+│   ├── backmap.nf
+│   └── nextflow.config
+├── original_wf
+│   └── backmap
+├── playzone
+│   ├── coverage_check
+│   └── nextflow_tests
+├── README.md
+└── test
+    ├── benchmarks
+    ├── config.yml
+    ├── data_prep
+    ├── data_prep_bams
+    ├── envs
+    ├── logs
+    ├── no_backup
+    ├── params_files
+    ├── results
+    ├── run-tests.sh
+    ├── sm_profile
+    ├── Snakefile
+    └── snakemake_workflows
+
+19 directories, 25 files
+```
 
 ## Test files