fix paths

assets/github_testing/TreeValTinyTest.yaml

@@ -6,26 +6,26 @@ assembly:
   asmVersion: 1
   dbVersion: "1"
   gevalType: DTOL
-reference_file: TreeValTinyData/assembly/draft/grTriPseu1.fa
+reference_file: /home/runner/work/treeval/treeval/TreeValTinyData/assembly/draft/grTriPseu1.fa
 assem_reads:
-  pacbio: TreeValTinyData/genomic_data/pacbio/
-  hic: TreeValTinyData/genomic_data/hic-arima/
+  pacbio: /home/runner/work/treeval/treeval/TreeValTinyData/genomic_data/pacbio/
+  hic: /home/runner/work/treeval/treeval/TreeValTinyData/genomic_data/hic-arima/
   supplementary: path
 alignment:
-  data_dir: dp24/TreeValTinyData/gene_alignment_data/
+  data_dir: /home/runner/work/treeval/treeval/TreeValTinyData/gene_alignment_data/
   common_name: "" # For future implementation (adding bee, wasp, ant etc)
   geneset: "LaetiporusSulphureus.gfLaeSulp1"
   #Path should end up looking like "{data_dir}{classT}/{common_name}/csv_data/{geneset}-data.csv"
 self_comp:
   motif_len: 0
   mummer_chunk: 10
 synteny:
-  synteny_genome_path: TreeValTinyData/synteny/
+  synteny_genome_path: /home/runner/work/treeval/treeval/TreeValTinyData/synteny/
 outdir: "NEEDS TESTING"
 intron:
   size: "50k"
 telomere:
   teloseq: TTAGGG
 busco:
-  lineages_path: TreeValTinyData/busco/subset/
+  lineages_path: /home/runner/work/treeval/treeval/TreeValTinyData/busco/subset/
   lineage: fungi_odb10