diff --git a/assets/github_testing/TreeValTinyTest.yaml b/assets/github_testing/TreeValTinyTest.yaml index d9152241..a4047439 100755 --- a/assets/github_testing/TreeValTinyTest.yaml +++ b/assets/github_testing/TreeValTinyTest.yaml @@ -1,16 +1,16 @@ assembly: - level: scaffold + assem_level: scaffold sample_id: grTriPseu1 latin_name: to_provide_taxonomic_rank - classT: fungi - asmVersion: 1 - dbVersion: "1" - gevalType: DTOL + defined_class: fungi + assem_version: 1 + project_id: DTOL reference_file: /home/runner/work/treeval/treeval/TreeValTinyData/assembly/draft/grTriPseu1.fa assem_reads: - pacbio: /home/runner/work/treeval/treeval/TreeValTinyData/genomic_data/pacbio/ - hic: /home/runner/work/treeval/treeval/TreeValTinyData/genomic_data/hic-arima/ - supplementary: path + longread_type: hifi + longread_data: /home/runner/work/treeval/treeval/TreeValTinyData/genomic_data/pacbio/ + hic_data: /home/runner/work/treeval/treeval/TreeValTinyData/genomic_data/hic-arima/ + supplementary_data: path alignment: data_dir: /home/runner/work/treeval/treeval/TreeValTinyData/gene_alignment_data/ common_name: "" # For future implementation (adding bee, wasp, ant etc) diff --git a/assets/local_testing/nxOscDF5033-BGA.yaml b/assets/local_testing/nxOscDF5033-BGA.yaml index ecb2ff1a..7db97b78 100755 --- a/assets/local_testing/nxOscDF5033-BGA.yaml +++ b/assets/local_testing/nxOscDF5033-BGA.yaml @@ -1,9 +1,10 @@ assembly: + assem_level: scaffold sample_id: Oscheius_DF5033 latin_name: to_provide_taxonomic_rank # Not currently in use - classT: nematode - asmVersion: 1 - gevalType: DTOL + defined_class: nematode + assem_version: 1 + project_id: DTOL reference_file: /workspace/treeval-curation/Oscheius_DF5033/genomic_data/Oscheius_DF5033.fa assem_reads: pacbio: /workspace/treeval-curation/Oscheius_DF5033/pacbio/ diff --git a/assets/local_testing/nxOscSUBSET.yaml b/assets/local_testing/nxOscSUBSET.yaml index 7f7fab4c..ef800b93 100755 --- a/assets/local_testing/nxOscSUBSET.yaml +++ b/assets/local_testing/nxOscSUBSET.yaml @@ -1,10 +1,10 @@ assembly: - level: scaffold + assem_level: scaffold sample_id: OscheiusSUBSET latin_name: to_provide_taxonomic_rank - classT: nematode - asmVersion: 1 - gevalType: DTOL + defined_class: nematode + assem_version: 1 + project_id: DTOL reference_file: /lustre/scratch123/tol/resources/treeval/treeval-testdata/TreeValSmallData/Oscheius_SUBSET/assembly/draft/SUBSET_genome/Oscheius_SUBSET.fasta #/lustre/scratch123/tol/resources/treeval/nextflow_test_data/Oscheius_DF5033/assembly/draft/DF5033.hifiasm.noTelos.20211120/DF5033.noTelos.hifiasm.purged.noCont.noMito.fasta assem_reads: