Delete gtdbtk_multi.smk

workflow/rules/Multi/Dereplicate/gtdbtk_multi.smk

-rule GTDBtk_bins:
-    input:
-        "Dereplication/dRep_multi_out/dereplicated_genomes/{clusterID}.contigs.fa"
-    output:
-        directory("Dereplication/GTDB_multi/{clusterID}.GTDB_out")
-    resources:
-        runtime = "12:00:00",
-        mem = BIGMEMCORE
-    params:
-        outdir = "Dereplication/GTDB_multi/{clusterID}"
-    conda: ENVDIR + "/IMP_gtdbtk.yaml"
-    log: "logs/dereplication_GTDBtk_bins.{clusterID}.log"
-    message: "GTDBtk_bins: Classifiying {wildcards.clusterID} using GTDBtk."
-    threads: getThreads(BIGCORENO)
-    shell:
-        """
-        mkdir -p {params.outdir} && cp {input} {params.outdir}
-        export GTDBTK_DATA_PATH="{DBPATH}/GTDB_tk"
-        export PYTHONPATH=$CONDA_PREFIX/lib/python3.7/site-packages
-        gtdbtk classify_wf --genome_dir {params.outdir}/ -x fa --out_dir {output[0]} --cpus {threads} > {log} 2>&1
-        """
-
-rule GTDBtk_summarize:
-    input:
-        gtdb = gather_multi_GTDB_bins,
-        dRep = expand("Dereplication/dRep_multi_out/data_tables/{file}.csv",
-                file=["Chdb","Cdb","Sdb","Wdb","Widb","Ndb"]),
-        bins= "Dereplication/dRep_multi/allSamples_bin_stats.tsv"
-    output:
-        "Dereplication/dRep_multi_out/dereplicated_rebin_stats.tsv",
-        report("Dereplication/rebinned_bin_stats.tsv",category="Re-binning and dereplication")
-    resources:
-        runtime = "4:00:00",
-        mem = MEMCORE
-    log: "logs/dereplication_GTDBtk_summarize.log"
-    message: "GTDBtk_summarize: Summarizing binning results."
-    threads: 1
-    conda: ENVDIR + "/IMP_binning.yaml"
-    script:
-        SRCDIR + "/multi_summarize_GTDBtk.R"
-