From ad13ec41324f88aaf24e98d47a9a1714cf8f2d54 Mon Sep 17 00:00:00 2001 From: Kevin Rue-Albrecht Date: Thu, 26 Sep 2024 13:57:49 +0100 Subject: [PATCH] version bump --- DESCRIPTION | 2 +- NEWS.md | 4 ++++ R/scvelo.R | 4 +++- man/scvelo.Rd | 11 ++++++----- 4 files changed, 14 insertions(+), 7 deletions(-) diff --git a/DESCRIPTION b/DESCRIPTION index e3bfaa4..161094b 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,6 +1,6 @@ Package: velociraptor Title: Toolkit for Single-Cell Velocity -Version: 1.15.11 +Version: 1.15.12 Date: 2024-09-12 Authors@R: c(person("Kevin", "Rue-Albrecht", role = c("aut", "cre"), email = "kevinrue67@gmail.com", comment = c(ORCID = "0000-0003-3899-3872")), person("Aaron", "Lun", role="aut", email="infinite.monkeys.with.keyboards@gmail.com", comment = c(ORCID = '0000-0002-3564-4813')), diff --git a/NEWS.md b/NEWS.md index 5cb0603..31c3957 100644 --- a/NEWS.md +++ b/NEWS.md @@ -1,3 +1,7 @@ +# velociraptor 1.15.12 + +* Update Conda environment for Linux to avoid Anaconda channel. + # velociraptor 1.15.11 * Re-enable `plotVelocityStream()` with a warning. diff --git a/R/scvelo.R b/R/scvelo.R index 7bbede0..a86eb52 100644 --- a/R/scvelo.R +++ b/R/scvelo.R @@ -108,12 +108,14 @@ #' #' \describe{ #' \item{Linux}{\pkg{scVelo} v0.3.2 from bioconda is used. +#' This is the latest version available to date. #' \pkg{libtiff} is pinned to v4.5.1 and \pkg{pillow} is pinned to v10.0.0 (\url{https://github.com/conda-forge/libtiff-feedstock/issues/104#issuecomment-2375893029}), #' \pkg{scipy} is pinned to v1.13.1 (\url{https://github.com/theislab/scvelo/issues/1260}). #' } #' \item{MacOS Arm}{\pkg{scVelo} v0.3.2 from conda-forge is used. #' This is the latest version available to date. -#' Tested on M1.} +#' \pkg{scipy} is pinned to v1.13.1 (\url{https://github.com/theislab/scvelo/issues/1260}) +#' } #' \item{Windows}{\pkg{scVelo} v0.2.5 from bioconda is used. #' Later versions of \pkg{scVelo} depend on \pkg{jaxlib} which is not supported on Windows (\url{https://github.com/google/jax/issues/438}). #' Note that \pkg{matplotlib} is pinned to v3.6.3 (\url{https://github.com/scverse/scanpy/issues/2411}), diff --git a/man/scvelo.Rd b/man/scvelo.Rd index b94cbb6..51db3de 100644 --- a/man/scvelo.Rd +++ b/man/scvelo.Rd @@ -177,14 +177,15 @@ Differences in packages and versions available from Conda require different envi As of the latest \pkg{velociraptor} update (24 May 2024): \describe{ -\item{Linux}{\pkg{scVelo} v0.2.2 from bioconda is used. -This is NOT the latest version available to date. -Instead, it is the latest version successfully tested in a complete Conda environment. -Note that pinned dependencies were obtained from \code{zellkonverter::AnnDataDependencies()}. +\item{Linux}{\pkg{scVelo} v0.3.2 from bioconda is used. +This is the latest version available to date. +\pkg{libtiff} is pinned to v4.5.1 and \pkg{pillow} is pinned to v10.0.0 (\url{https://github.com/conda-forge/libtiff-feedstock/issues/104#issuecomment-2375893029}), +\pkg{scipy} is pinned to v1.13.1 (\url{https://github.com/theislab/scvelo/issues/1260}). } \item{MacOS Arm}{\pkg{scVelo} v0.3.2 from conda-forge is used. This is the latest version available to date. -Tested on M1.} +\pkg{scipy} is pinned to v1.13.1 (\url{https://github.com/theislab/scvelo/issues/1260}) +} \item{Windows}{\pkg{scVelo} v0.2.5 from bioconda is used. Later versions of \pkg{scVelo} depend on \pkg{jaxlib} which is not supported on Windows (\url{https://github.com/google/jax/issues/438}). Note that \pkg{matplotlib} is pinned to v3.6.3 (\url{https://github.com/scverse/scanpy/issues/2411}),