From dada3e9905a53e41a4b796c718c19822b8673627 Mon Sep 17 00:00:00 2001 From: Roberto Preste Date: Mon, 28 Mar 2022 22:47:00 +0000 Subject: [PATCH] Add gitpod.Dockerfile and update deps --- .gitpod.Dockerfile | 3 +++ .gitpod.yml | 9 +++++++++ requirements.txt | 36 ++++++++++++++++++------------------ 3 files changed, 30 insertions(+), 18 deletions(-) create mode 100644 .gitpod.Dockerfile create mode 100644 .gitpod.yml diff --git a/.gitpod.Dockerfile b/.gitpod.Dockerfile new file mode 100644 index 0000000..eaf623a --- /dev/null +++ b/.gitpod.Dockerfile @@ -0,0 +1,3 @@ +FROM gitpod/workspace-full + +RUN sudo apt-get update && apt-get install ffmpeg libsm6 libxext6 -y && sudo rm -rf /var/lib/apt/lists/* diff --git a/.gitpod.yml b/.gitpod.yml new file mode 100644 index 0000000..45768a8 --- /dev/null +++ b/.gitpod.yml @@ -0,0 +1,9 @@ +# This configuration file was automatically generated by Gitpod. +# Please adjust to your needs (see https://www.gitpod.io/docs/config-gitpod-file) +# and commit this file to your remote git repository to share the goodness with others. + +tasks: + - init: pip install -r requirements.txt +image: .gitpod.Dockerfile + + diff --git a/requirements.txt b/requirements.txt index 7fe4280..3ec3f88 100644 --- a/requirements.txt +++ b/requirements.txt @@ -1,25 +1,25 @@ -click==7.0 +click==8.1.0 pip==22.0.4 -bump2version==0.5.11 -wheel==0.33.6 -watchdog==0.9.0 -coverage==5.5 -tox==3.14.3 -flake8==3.7.9 -sphinx-click==2.3.1 -Sphinx==3.0.4 +bump2version==1.0.1 +wheel==0.37.1 +watchdog==2.1.7 +coverage==6.3.2 +tox==3.24.5 +flake8==4.0.1 +sphinx-click==3.1.0 +Sphinx==4.5.0 sphinxcontrib-napoleon==0.7 -codecov==2.0.21 -pytest-cov==2.8.1 +codecov==2.1.12 +pytest-cov==3.0.0 pytest-runner==6.0.0 -pytest==5.3.2 -twine==3.1.1 +pytest==7.1.1 +twine==3.8.0 numpy==1.22.3 -pandas==0.25.3 -matplotlib==3.1.2 -pysam==0.15.3 -vcfpy==0.12.1 -opencv-python==4.2.0.32 +pandas==1.4.1 +matplotlib==3.5.1 +pysam==0.18.0 +vcfpy==0.13.3 +opencv-python==4.5.5.64 plotly==5.6.0