updating config test

config/config_test.yaml

@@ -16,10 +16,10 @@ low:
   t: 4 # number of threads
 
 # Path to hifi reads
-hifi_path: "../test_data/raw_hifi/"
+hifi_path: "test_data/raw_hifi/"
 
 # Path to hic reads
-hic_path: "../test_data/raw_hic/"
+hic_path: "test_data/raw_hic/"
 
 # Customisable parameters for kmc
 kmc:
@@ -41,7 +41,7 @@ genomescope2:
 oatk:
   k: 1001 # kmer size [1001]
   c: 150 #  minimum kmer coverage [3]
-  m: "../test_data/oatkDB/dikarya_mito.fam" # mitochondria gene annotation HMM profile database [NULL]
+  m: "test_data/oatkDB/dikarya_mito.fam" # mitochondria gene annotation HMM profile database [NULL]
   optional_params: 
     "-p": "" # to use for species that have a plastid db
 
@@ -65,7 +65,7 @@ include_fcsgx: True #inlcude this rule only if you have previously downloaded th
 # Customisable parameters for fcsgx
 fcsgx:
   ncbi_tax_id: 4932
-  path_to_gx_db: "../test_data/gx_test_db/test-only"
+  path_to_gx_db: "test_data/gx_test_db/test-only"
 
 # Set this to False if you want to skip purge_dups steps:
 include_purge_dups: False
@@ -85,9 +85,9 @@ quast:
   optional_params: 
     "--fragmented": ""
     "--large": ""
-#    "-r": "../test_data/reference_genomes/yeast/Saccharomyces_cerevisiae.R64-1-1.dna.toplevel.fa"
-#    "-g": "../test_data/reference_genomes/yeast/Saccharomyces_cerevisiae.R64-1-1.101.gff3"
+#    "-r": "test_data/reference_genomes/yeast/Saccharomyces_cerevisiae.R64-1-1.dna.toplevel.fa"
+#    "-g": "test_data/reference_genomes/yeast/Saccharomyces_cerevisiae.R64-1-1.101.gff3"
 
 # Customisable parameters for busco
 busco:
-  lineage: "../test_data/busco_db/saccharomycetes_odb10" # lineage to be used for busco analysis
+  lineage: "test_data/busco_db/saccharomycetes_odb10" # lineage to be used for busco analysis