From 65e65b36435a29aa23229fb3b5dd83400a860123 Mon Sep 17 00:00:00 2001 From: Andrew D Smith Date: Thu, 19 Oct 2023 17:09:35 -0700 Subject: [PATCH 1/2] Updating version numbers inside files for v1.4.2 --- MAINTAINERS.md | 2 +- README.md | 10 +++++----- configure.ac | 2 +- docs/content/quickstart.md | 6 +++--- 4 files changed, 10 insertions(+), 10 deletions(-) diff --git a/MAINTAINERS.md b/MAINTAINERS.md index 928744e7..19146858 100644 --- a/MAINTAINERS.md +++ b/MAINTAINERS.md @@ -67,6 +67,6 @@ The image can be pulled by one of the following commands. ```bash docker pull ghcr.io/smithlabcode/dnmtools:latest docker pull ghcr.io/smithlabcode/dnmtools:[7-DIGIT SHA] -docker pull ghcr.io/smithlabcode/dnmtools:v[VERSION NUMBER] #(e.g. v1.4.1) +docker pull ghcr.io/smithlabcode/dnmtools:v[VERSION NUMBER] #(e.g. v1.4.2) ``` diff --git a/README.md b/README.md index e4983f18..19f0d8a3 100644 --- a/README.md +++ b/README.md @@ -12,7 +12,7 @@ sequencing (RRBS). These tools focus on overcoming the computing challenges imposed by the scale of genome-wide DNA methylation data, which is usually the early parts of data analysis. -## Installing release 1.4.1 +## Installing release 1.4.2 The documentation for DNMTools can be found [here](https://dnmtools.readthedocs.io). But if you want to install @@ -41,14 +41,14 @@ repo, it is easiest if all dependencies are available through conda. ### Configuration -* Download [dnmtools-1.4.1.tar.gz](https://github.com/smithlabcode/dnmtools/releases/download/v1.4.1/dnmtools-1.4.1.tar.gz). +* Download [dnmtools-1.4.2.tar.gz](https://github.com/smithlabcode/dnmtools/releases/download/v1.4.2/dnmtools-1.4.2.tar.gz). * Unpack the archive: ```console -tar -zxvf dnmtools-1.4.1.tar.gz +tar -zxvf dnmtools-1.4.2.tar.gz ``` * Move into the dnmtools directory and create a build directory: ```console -cd dnmtools-1.4.1 && mkdir build && cd build +cd dnmtools-1.4.2 && mkdir build && cd build ``` * Run the configuration script: ```console @@ -137,7 +137,7 @@ docker tag ghcr.io/smithlabcode/dnmtools:latest dnmtools:latest You can also install the image for a particular vertion by running ```console -docker pull ghcr.io/smithlabcode/dnmtools:v[VERSION NUMBER] #(e.g. v1.4.1) +docker pull ghcr.io/smithlabcode/dnmtools:v[VERSION NUMBER] #(e.g. v1.4.2) ``` Not all versions have corresponding images; you can find available images [here](https://github.com/smithlabcode/dnmtools/pkgs/container/dnmtools). diff --git a/configure.ac b/configure.ac index 2b417527..1f76d7d0 100644 --- a/configure.ac +++ b/configure.ac @@ -14,7 +14,7 @@ dnl but WITHOUT ANY WARRANTY; without even the implied warranty of dnl MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU dnl General Public License for more details. -AC_INIT([dnmtools], [1.4.1], [andrewds@usc.edu], +AC_INIT([dnmtools], [1.4.2], [andrewds@usc.edu], [dnmtools], [https://github.com/smithlabcode/dnmtools]) dnl the config.h is #included in the sources for version info AC_CONFIG_HEADERS([config.h]) diff --git a/docs/content/quickstart.md b/docs/content/quickstart.md index a3fa635c..0b80aadb 100644 --- a/docs/content/quickstart.md +++ b/docs/content/quickstart.md @@ -72,14 +72,14 @@ would need to be activated when you want to use dnmtools. ### Configuration -* Download [dnmtools-1.4.1.tar.gz](https://github.com/smithlabcode/dnmtools/releases/download/v1.4.1/dnmtools-1.4.1.tar.gz). +* Download [dnmtools-1.4.2.tar.gz](https://github.com/smithlabcode/dnmtools/releases/download/v1.4.2/dnmtools-1.4.2.tar.gz). * Unpack the archive: ```console -$ tar -zxvf dnmtools-1.4.1.tar.gz +$ tar -zxvf dnmtools-1.4.2.tar.gz ``` * Move into the dnmtools directory and create a build directory: ```console -$ cd dnmtools-1.4.1 +$ cd dnmtools-1.4.2 $ mkdir build && cd build ``` * Run the configuration script: From 65852ae23b35e82e1cf2f8d4016eb079afc6ff47 Mon Sep 17 00:00:00 2001 From: Andrew D Smith Date: Thu, 19 Oct 2023 17:09:50 -0700 Subject: [PATCH 2/2] Updating checksums for testing to match v1.4.2 --- data/md5sum.txt | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/data/md5sum.txt b/data/md5sum.txt index 39ad4881..e0426e52 100644 --- a/data/md5sum.txt +++ b/data/md5sum.txt @@ -18,5 +18,5 @@ ec6a686617cad31e9f7a37a3d378e6ed tests/two_epialleles.states 93e38b20d162062a5d147c4290095a13 tests/mlml.out d947fe3d61ef7b1564558a69608f0e64 tests/methylome.pmd 7d481d31e4316e97d519838f4887b10d tests/reads.sam -4b038c82b51be15307d4969e859e864f tests/reads.fmt.sam -a7b94dd23f308f653fbfab98ec7b62d8 tests/reads.fmt.srt.uniq.sam +466e2715f0c677593e84b3790efbec6e tests/reads.fmt.sam +5583ebe1b689159f8eb0a93f32e2fd48 tests/reads.fmt.srt.uniq.sam