Commit 6fab92e8 authored by Carine Rey's avatar Carine Rey
Browse files

update pcoc version (take into account indels)

parent aa74e39b
......@@ -81,7 +81,7 @@ RUN git clone https://github.com/BioPP/bppsuite . &&\
WORKDIR $HOME/pcoc
RUN git clone https://github.com/CarineRey/pcoc.git . &&\
git checkout daa1b18
git checkout 70e60ce
RUN cp -r data /data/ && \
cp README.md /usr/local/etc/ & \
......
......@@ -4,7 +4,7 @@ set -e
IMAGE_NAME=pcoc
DOCKERFILE_DIR=.
TAG=07022018
TAG=08312018
REPO=carinerey/$IMAGE_NAME:$TAG
docker build -t $REPO -f ./Dockerfile $DOCKERFILE_DIR
......
......@@ -5,7 +5,7 @@ open Bistro_bioinfo.Std
open File_formats
let pcoc ?plot_complete ?gamma ?catx_est ~(faa:aminoacid_fasta workflow) ~(tree:_ workflow) : [`pcoc] directory workflow =
let env = docker_image ~account:"carinerey" ~name:"pcoc" ~tag:"07022018" () in
let env = docker_image ~account:"carinerey" ~name:"pcoc" ~tag:"08312018" () in
workflow ~descr:"convergence_detection.pcoc" [
cmd "pcoc_det.py" ~env [
opt "-t" dep tree;
......
......@@ -107,7 +107,7 @@ let make_t_choices ?(tree_prefix="") ~haPCOC_mr
]
let make_simu_infos ?(descr="") ?(fna_infos) ~faa ~tree_sc : text_file workflow =
let env = docker_image ~account:"carinerey" ~name:"pcoc" ~tag:"07022018" () in
let env = docker_image ~account:"carinerey" ~name:"pcoc" ~tag:"08312018" () in
workflow ~descr:("post_analyses.simu_infos." ^ descr) [
cmd "python" ~env [
file_dump (string Scripts.calc_simu_infos) ;
......
......@@ -59,7 +59,7 @@ let topological ~(tree:_ workflow) ~(tree_conv:_ workflow) ~(faa:aminoacid_fasta
let bppml_out = run_bppml / selector ["infos.tsv"] in
let bppml_out_conv = run_bppml_conv / selector ["infos.tsv"] in
let out = dest // "out.tsv" in
let env = docker_image ~account:"carinerey" ~name:"pcoc" ~tag:"07022018" () in
let env = docker_image ~account:"carinerey" ~name:"pcoc" ~tag:"08312018" () in
workflow ~descr:("topological.parse_"^prot_model) [
mkdir dest ;
cmd "cp" [dep bppml_out ; dest // "estimates.bppml_out.tsv" ];
......
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