From 367188d5987c15393aa679c7a0841a8b71a65493 Mon Sep 17 00:00:00 2001 From: chien-chi Date: Wed, 9 Oct 2024 15:22:26 -0600 Subject: [PATCH 1/2] update num_tRNA to num_t_rna for schema change --- Docker/mbin_stats.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/Docker/mbin_stats.py b/Docker/mbin_stats.py index 99ad9e8..2b19c30 100755 --- a/Docker/mbin_stats.py +++ b/Docker/mbin_stats.py @@ -53,7 +53,7 @@ def mag_meta(dbname, output): tmp_d["num_16s"] = row[13] tmp_d["num_5s"] = row[14] tmp_d["num_23s"] = row[15] - tmp_d["num_tRNA"] = row[16] + tmp_d["num_t_rna"] = row[16] tmp_d["gtdbtk_domain"] = row[17] tmp_d["gtdbtk_phylum"] = row[18] tmp_d["gtdbtk_class"] = row[19] From c28dbaf79cd503bb3e515f6e4f77459d019e3c8b Mon Sep 17 00:00:00 2001 From: Chienchi Lo Date: Wed, 9 Oct 2024 15:42:02 -0600 Subject: [PATCH 2/2] update docker sha256 hash. bump version to 1.3.11. --- Docker/Dockerfile | 12 ++++++------ mbin_nmdc.wdl | 2 +- version.txt | 2 +- 3 files changed, 8 insertions(+), 8 deletions(-) diff --git a/Docker/Dockerfile b/Docker/Dockerfile index 95cec72..5e246bc 100644 --- a/Docker/Dockerfile +++ b/Docker/Dockerfile @@ -1,22 +1,22 @@ FROM doejgi/mbin:v1.0.1 ## python 3.9.12 -MAINTAINER chienchi@lanl.gov -LABEL version="1.0.2" +LABEL maintainer="chienchi@lanl.gov" +LABEL version="1.0.3" LABEL software="NMDC_MAG_Pipeline" LABEL tags="bioinformatics" # Tell systemd we're running in Docker! -ENV container docker +ENV container="docker" ADD * /opt/conda/bin/ -ENV GTDBTK_DATA_PATH /databases/GTDBTK_DB -ENV CHECKM_DATA_PATH /databases/CheckM_DB -ENV EUKCC2_DB /databases/EUKCC2_DB +ENV GTDBTK_DATA_PATH=/databases/GTDBTK_DB +ENV CHECKM_DATA_PATH=/databases/CheckM_DB +ENV EUKCC2_DB=/databases/EUKCC2_DB WORKDIR /data diff --git a/mbin_nmdc.wdl b/mbin_nmdc.wdl index 0a96dcc..72cba18 100755 --- a/mbin_nmdc.wdl +++ b/mbin_nmdc.wdl @@ -24,7 +24,7 @@ workflow nmdc_mags { String checkm_db="/refdata/checkM_DB/checkm_data_2015_01_16" String eukcc2_db="/refdata/EUKCC2_DB/eukcc2_db_ver_1.2" String package_container = "microbiomedata/nmdc_mbin_vis:0.7.0" - String container = "microbiomedata/nmdc_mbin@sha256:f3b154718474d2e21b53dbf4c1c35a1d3190eba3fe6b8f3fda105fcde22d9639" + String container = "microbiomedata/nmdc_mbin@sha256:49e218e9de783d3f307740dd02c9e0213bfaff0b8095abc89eb111a962388430" } call stage { input: diff --git a/version.txt b/version.txt index fb3afc8..69f9380 100644 --- a/version.txt +++ b/version.txt @@ -1 +1 @@ -v1.3.10 +v1.3.11