From bc7f43aca48f57d728205fb6caeeed3d477b0f37 Mon Sep 17 00:00:00 2001 From: Svetlana Kutuzova Date: Thu, 26 Oct 2023 15:14:16 +0200 Subject: [PATCH] fix: marker genes --- .github/workflows/cli_vamb.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/cli_vamb.yml b/.github/workflows/cli_vamb.yml index dbf57d84..a2f9cb9f 100644 --- a/.github/workflows/cli_vamb.yml +++ b/.github/workflows/cli_vamb.yml @@ -58,6 +58,6 @@ jobs: cat outdir_taxometer/log.txt - name: Run k-means reclustering run: | - vamb recluster --outdir outdir_recluster --fasta catalogue_mock.fna.gz --rpkm abundance_mock.npz --latent_path outdir_taxvamb/vaevae_latent.npy --clusters_path outdir_taxvamb/vaevae_clusters.tsv --algorithm kmeans --minfasta 200000 + vamb recluster --outdir outdir_recluster --fasta catalogue_mock.fna.gz --rpkm abundance_mock.npz --latent_path outdir_taxvamb/vaevae_latent.npy --clusters_path outdir_taxvamb/vaevae_clusters.tsv --hmmout_path markers_mock.hmmout --algorithm kmeans --minfasta 200000 ls -la outdir_recluster cat outdir_recluster/log.txt