From 98271c37121e97f09d4fb075aaaac1c4e30cd723 Mon Sep 17 00:00:00 2001
From: George Young <A-N-Other@users.noreply.github.com>
Date: Fri, 6 Oct 2023 20:00:03 +0100
Subject: topaz: new package @0.2.5 (#40352)
* topaz: new package @0.2.5
* switching over to pypi
---------
Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
---
var/spack/repos/builtin/packages/topaz/package.py | 27 +++++++++++++++++++++++
1 file changed, 27 insertions(+)
create mode 100644 var/spack/repos/builtin/packages/topaz/package.py
(limited to 'var')
diff --git a/var/spack/repos/builtin/packages/topaz/package.py b/var/spack/repos/builtin/packages/topaz/package.py
new file mode 100644
index 0000000000..855cba4d6c
--- /dev/null
+++ b/var/spack/repos/builtin/packages/topaz/package.py
@@ -0,0 +1,27 @@
+# Copyright 2013-2023 Lawrence Livermore National Security, LLC and other
+# Spack Project Developers. See the top-level COPYRIGHT file for details.
+#
+# SPDX-License-Identifier: (Apache-2.0 OR MIT)
+
+from spack.package import *
+
+
+class Topaz(PythonPackage):
+ """topaz: Pipeline for particle picking in cryo-electron microscopy images using
+ convolutional neural networks trained from positive and unlabeled examples. Also
+ featuring micrograph and tomogram denoising with DNNs."""
+
+ homepage = "https://topaz-em.readthedocs.io/"
+ pypi = "topaz-em/topaz-em-0.2.5.tar.gz"
+
+ version("0.2.5", sha256="002a6eb775598b6c4df0225f3a488bfe6a6da9246e8ca42eb4e7d58f694c25cc")
+
+ depends_on("py-setuptools", type="build")
+ depends_on("py-torch@1:", type=("build", "run"))
+ depends_on("py-torchvision", type=("build", "run"))
+ depends_on("py-numpy@1.11:", type=("build", "run"))
+ depends_on("py-pandas", type=("build", "run"))
+ depends_on("py-scikit-learn@0.19.0:", type=("build", "run"))
+ depends_on("py-scipy@0.17.0:", type=("build", "run"))
+ depends_on("py-pillow@6.2.0:", type=("build", "run"))
+ depends_on("py-future", type=("build", "run"))
--
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