Attachment 827148 Details for Bug 790629 – spec file for bowtie2

spec file for bowtie2

bowtie2.spec (text/x-rpm-spec), 1.77 KB, created by Dave Love on 2013-11-21 11:28:43 UTC

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Creator: Dave Love

Created: 2013-11-21 11:28:43 UTC

Size: 1.77 KB

patch

obsolete

>Name:		bowtie2
>Version:	2.1.0
>Release:	2%{?dist}
>Summary:	Fast and sensitive read alignment
>
>Group:		Engineering and Scientific
># The tinythread component is zlib-like
>License:	GPLv3+ and zlib
>URL:		http://bowtie-bio.sourceforge.net/bowtie2/index.shtml
>Source0:	http://downloads.sourceforge.net/bowtie-bio/bowtie2/%{name}-%{version}-source.zip
>BuildRoot:	%{_tmppath}/%{name}-%{version}-%{release}-root-%(%{__id_u} -n)
>
>BuildRequires:	gcc-c++
>
>%description
>
>Bowtie 2 is an ultrafast and memory-efficient tool for aligning
>sequencing reads to long reference sequences. It is particularly good
>at aligning reads of about 50 up to 100s or 1,000s of characters, and
>particularly good at aligning to relatively long (e.g. mammalian)
>genomes. Bowtie 2 indexes the genome with an FM Index to keep its
>memory footprint small: for the human genome, its memory footprint is
>typically around 3.2 GB. Bowtie 2 supports gapped, local, and
>paired-end alignment modes.
>Please cite:
>Langmead B, Salzberg S. Fast gapped-read alignment with Bowtie 2.
>Nature Methods. 2012, 9:357-359
>
>%prep
>%setup -q
>
>%build
>make %{?_smp_mflags} EXTRA_FLAGS="%{optflags}"
>
>
>%install
>rm -rf %{buildroot}
>
>mkdir -p %{buildroot}/%_bindir
>mkdir -p %{buildroot}/%_datadir/%name
>
>install -m 0755 bowtie2 bowtie2-align bowtie2-build bowtie2-inspect \
>   %{buildroot}/%{_bindir}
>cp -a example scripts %{buildroot}/%{_datadir}/%name/
>
>%clean
>rm -rf %{buildroot}
>
>
>%files
>%defattr(-,root,root,-)
>%doc doc/{style.css,manual.html} AUTHORS LICENSE NEWS MANUAL TUTORIAL
>%{_bindir}/*
>%{_datadir}/%name
>
>%changelog
>* Wed Nov 20 2013 Dave Love <d.love@liverpool.ac.uk> - 2.1.0-2
>- Include the scripts directory and don't include doc/README
>- Note tinythread licence
>
>* Sun May 12 2013 Dave Love <d.love@liverpool.ac.uk> - 2.1.0-1
>- Initial version, based on bowtie

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Attachments on bug 790629: 827148