Mercurial > repos > mvdbeek > igv_take_screenshots
changeset 34:fbba13c34eb8 draft default tip
"planemo upload for repository https://github.com/bardin-lab/readtagger/tree/master/galaxy commit c6f25b122899a00695b5ca9e70d34e2c1d288236-dirty"
| author | mvdbeek |
|---|---|
| date | Mon, 03 Feb 2020 09:40:58 +0000 |
| parents | 3f980046df62 |
| children | |
| files | Dockerfile igv_make_screenshots.xml |
| diffstat | 2 files changed, 6 insertions(+), 6 deletions(-) [+] |
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--- a/Dockerfile Sun Jan 20 14:57:41 2019 -0500 +++ b/Dockerfile Mon Feb 03 09:40:58 2020 +0000 @@ -1,4 +1,4 @@ -FROM continuumio/miniconda3:4.5.11 +FROM continuumio/miniconda3:latest RUN apt-get update && apt-get install -y xvfb libxrender1 libxtst6 && apt-get clean -RUN conda install -y -c conda-forge -c bioconda xvfbwrapper samtools igv openjdk=8 freetype font-ttf-dejavu-sans-mono fontconfig coreutils +RUN conda install -y -c conda-forge -c bioconda xvfbwrapper samtools igv freetype font-ttf-dejavu-sans-mono fontconfig coreutils
--- a/igv_make_screenshots.xml Sun Jan 20 14:57:41 2019 -0500 +++ b/igv_make_screenshots.xml Mon Feb 03 09:40:58 2020 +0000 @@ -1,4 +1,4 @@ -<tool id="igv_make_screenshots" name="IGV_screenshots" version="0.1.2"> +<tool id="igv_make_screenshots" name="IGV_screenshots" version="0.1.3"> <macros> <token name="@DISPLAY_LINK@"><![CDATA[ #set $dataset_id = str($__app__.security.encode_id($inputsection.input.dataset.id)) @@ -27,7 +27,7 @@ <requirement type="package" version="1.9">samtools</requirement> <requirement type="package" version="8.30">coreutils</requirement> --> - <container type="docker">mvdbeek/igv_make_screenshots:0.1.2</container> + <container type="docker">mvdbeek/igv_make_screenshots:0.1.3</container> </requirements> <command detect_errors="exit_code"><![CDATA[ #if $genome_source.input_type_selector == 'history': @@ -51,8 +51,8 @@ cat load_session.txt '$script_file' '$exit_session' > igv_script.txt && cp '$igv_session_remote' '$igv_session_out' #if not $skip_screenshots: - && xvfb-run --server-args="-screen 0 ${width}x${height}x24" igv -g genome.fa -o '$igv_preferences' --batch igv_script.txt && - mkdir screenshots && mv *.png screenshots || true + && xvfb-run -a --server-args="-screen 0 ${width}x${height}x24" igv -g genome.fa -o '$igv_preferences' --batch igv_script.txt && + mkdir screenshots && mv *.png screenshots || touch screenshots/empty.png #end if ]]></command> <configfiles>