From 5a83f6e53151b11822feef4daf972553690f8780 Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?B=C3=A9r=C3=A9nice=20Batut?= Date: Fri, 23 Feb 2024 16:29:42 +0100 Subject: [PATCH 1/2] Add bio.tools for smalt --- tools/smalt/smalt_map.xml | 3 +++ 1 file changed, 3 insertions(+) diff --git a/tools/smalt/smalt_map.xml b/tools/smalt/smalt_map.xml index c7f89b0a..e08c5c96 100644 --- a/tools/smalt/smalt_map.xml +++ b/tools/smalt/smalt_map.xml @@ -4,6 +4,9 @@ 0.7.6 fastq,fastq.gz,fastqsanger,fastqsanger.gz + + smalt + smalt samtools From 5d0c4e41be87c664fa5d5daf9f60f11bf9365740 Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?B=C3=A9r=C3=A9nice=20Batut?= Date: Fri, 23 Feb 2024 16:29:54 +0100 Subject: [PATCH 2/2] Fix link to remote_repository_url --- tools/smalt/.shed.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/tools/smalt/.shed.yml b/tools/smalt/.shed.yml index bbaa0cfb..98c5e583 100644 --- a/tools/smalt/.shed.yml +++ b/tools/smalt/.shed.yml @@ -2,6 +2,6 @@ categories: [Sequence Analysis] description: SMALT aligns DNA sequencing reads with a reference genome. long_description: SMALT employs a hash index of short words up to 20 nucleotides long and sampled at equidistant steps along the reference genome. For each sequencing read, potentially matching segments in the reference genome are identified from seed matches in the index and subsequently aligned with the read using dynamic programming. homepage_url: http://www.sanger.ac.uk/science/tools/smalt-0 -remote_repository_url: https://sourceforge.net/projects/smalt/ +remote_repository_url: https://github.com/phac-nml/galaxy_tools/tree/master/tools/smalt name: smalt owner: nml