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54 update num_trna to num_t_rna in mbin statspy #55

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merged 2 commits into from
Oct 9, 2024
Merged

54 update num_trna to num_t_rna in mbin statspy #55

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367188d
update num_tRNA to num_t_rna for schema change
Oct 9, 2024
c28dbaf
update docker sha256 hash. bump version to 1.3.11.
Oct 9, 2024
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12 changes: 6 additions & 6 deletions Docker/Dockerfile
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Original file line number Diff line number Diff line change
@@ -1,22 +1,22 @@
FROM doejgi/mbin:v1.0.1
## python 3.9.12
MAINTAINER [email protected]

LABEL version="1.0.2"
LABEL maintainer="[email protected]"
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

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2 changes: 1 addition & 1 deletion Docker/mbin_stats.py
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Expand Up @@ -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]
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2 changes: 1 addition & 1 deletion mbin_nmdc.wdl
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Expand Up @@ -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:
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2 changes: 1 addition & 1 deletion version.txt
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@@ -1 +1 @@
v1.3.10
v1.3.11
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