commit: 1efa11df584f6796903837ee2272ea628686889d Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> AuthorDate: Sat Apr 5 11:38:06 2014 +0000 Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz> CommitDate: Sat Apr 5 11:38:06 2014 +0000 URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=1efa11df
sci-biology/consed: fix more hardcoded paths Package-Manager: portage-2.2.7 --- sci-biology/consed/ChangeLog | 5 +++++ sci-biology/consed/consed-20-r1.ebuild | 4 +++- sci-biology/consed/consed-21.ebuild | 4 +++- sci-biology/consed/consed-22.ebuild | 4 +++- sci-biology/consed/consed-23.ebuild | 4 +++- sci-biology/consed/consed-24.ebuild | 4 +++- sci-biology/consed/consed-25.ebuild | 4 +++- sci-biology/consed/consed-26.ebuild | 4 +++- sci-biology/consed/consed-27.ebuild | 4 +++- 9 files changed, 29 insertions(+), 8 deletions(-) diff --git a/sci-biology/consed/ChangeLog b/sci-biology/consed/ChangeLog index 0fe8c19..ed7f9c8 100644 --- a/sci-biology/consed/ChangeLog +++ b/sci-biology/consed/ChangeLog @@ -2,6 +2,11 @@ # Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2 # $Header: $ + 05 Apr 2014; Martin Mokrejs <[email protected]> consed-20-r1.ebuild, + consed-21.ebuild, consed-22.ebuild, consed-23.ebuild, consed-24.ebuild, + consed-25.ebuild, consed-26.ebuild, consed-27.ebuild: + sci-biology/consed: fix more hardcoded paths + 02 Apr 2014; Martin Mokrejs <[email protected]> consed-20-r1.ebuild, consed-21.ebuild, consed-22.ebuild, consed-23.ebuild, consed-24.ebuild, consed-25.ebuild, consed-26.ebuild, consed-27.ebuild: diff --git a/sci-biology/consed/consed-20-r1.ebuild b/sci-biology/consed/consed-20-r1.ebuild index cfcb66e..7f7ddc1 100644 --- a/sci-biology/consed/consed-20-r1.ebuild +++ b/sci-biology/consed/consed-20-r1.ebuild @@ -65,7 +65,9 @@ src_install() { solexa_example_answer selectRegions selectRegionsAnswer || die echo 'CONSED_HOME='${EPREFIX}'/usr' > "${S}/99consed" doenvd "${S}/99consed" || die - sed -e "s#/usr/local/genome#${EPREFIX}/usr#" -i "${D}"/usr/bin/*.perl || die + sed -e "s#/usr/local/genome#${EPREFIX}/usr#" -i "${D}"/usr/bin/*.perl "${D}"/usr/bin/phredPhrap "${D}"/usr/bin/phredPhrapWithPhdBalls || die + sed -e 's#niceExe = "/bin/nice"#niceExe = "/usr/bin/nice"#' -i "${D}"/usr/bin/phredPhrap || die + sed -e 's#/wt1/gordon/genome#/usr/bin#' -i "${D}"/usr/bin/fastq2Phrap.perl || die dodoc README.txt *_announcement.txt || die } diff --git a/sci-biology/consed/consed-21.ebuild b/sci-biology/consed/consed-21.ebuild index 55ba90a..77ec1a2 100644 --- a/sci-biology/consed/consed-21.ebuild +++ b/sci-biology/consed/consed-21.ebuild @@ -64,7 +64,9 @@ src_install() { align454reads align454reads_answer solexa_example \ solexa_example_answer selectRegions selectRegionsAnswer || die echo 'CONSED_HOME='${EPREFIX}'/usr' > "${S}/99consed" - sed -e "s#/usr/local/genome#${EPREFIX}/usr#" -i "${D}"/usr/bin/*.perl || die + sed -e "s#/usr/local/genome#${EPREFIX}/usr#" -i "${D}"/usr/bin/*.perl "${D}"/usr/bin/phredPhrap "${D}"/usr/bin/phredPhrapWithPhdBalls || die + sed -e 's#niceExe = "/bin/nice"#niceExe = "/usr/bin/nice"#' -i "${D}"/usr/bin/phredPhrap || die + sed -e 's#/wt1/gordon/genome#/usr/bin#' -i "${D}"/usr/bin/fastq2Phrap.perl || die doenvd "${S}/99consed" || die dodoc README.txt *_announcement.txt || die } diff --git a/sci-biology/consed/consed-22.ebuild b/sci-biology/consed/consed-22.ebuild index d0a26e8..e7c9186 100644 --- a/sci-biology/consed/consed-22.ebuild +++ b/sci-biology/consed/consed-22.ebuild @@ -65,7 +65,9 @@ src_install() { solexa_example_answer selectRegions selectRegionsAnswer || die echo 'CONSED_HOME='${EPREFIX}'/usr' > "${S}/99consed" doenvd "${S}/99consed" || die - sed -e "s#/usr/local/genome#${EPREFIX}/usr#" -i "${D}"/usr/bin/*.perl || die + sed -e "s#/usr/local/genome#${EPREFIX}/usr#" -i "${D}"/usr/bin/*.perl "${D}"/usr/bin/phredPhrap "${D}"/usr/bin/phredPhrapWithPhdBalls || die + sed -e 's#niceExe = "/bin/nice"#niceExe = "/usr/bin/nice"#' -i "${D}"/usr/bin/phredPhrap || die + sed -e 's#/wt1/gordon/genome#/usr/bin#' -i "${D}"/usr/bin/fastq2Phrap.perl || die dodoc README.txt *_announcement.txt || die } diff --git a/sci-biology/consed/consed-23.ebuild b/sci-biology/consed/consed-23.ebuild index d0a26e8..e7c9186 100644 --- a/sci-biology/consed/consed-23.ebuild +++ b/sci-biology/consed/consed-23.ebuild @@ -65,7 +65,9 @@ src_install() { solexa_example_answer selectRegions selectRegionsAnswer || die echo 'CONSED_HOME='${EPREFIX}'/usr' > "${S}/99consed" doenvd "${S}/99consed" || die - sed -e "s#/usr/local/genome#${EPREFIX}/usr#" -i "${D}"/usr/bin/*.perl || die + sed -e "s#/usr/local/genome#${EPREFIX}/usr#" -i "${D}"/usr/bin/*.perl "${D}"/usr/bin/phredPhrap "${D}"/usr/bin/phredPhrapWithPhdBalls || die + sed -e 's#niceExe = "/bin/nice"#niceExe = "/usr/bin/nice"#' -i "${D}"/usr/bin/phredPhrap || die + sed -e 's#/wt1/gordon/genome#/usr/bin#' -i "${D}"/usr/bin/fastq2Phrap.perl || die dodoc README.txt *_announcement.txt || die } diff --git a/sci-biology/consed/consed-24.ebuild b/sci-biology/consed/consed-24.ebuild index d0a26e8..e7c9186 100644 --- a/sci-biology/consed/consed-24.ebuild +++ b/sci-biology/consed/consed-24.ebuild @@ -65,7 +65,9 @@ src_install() { solexa_example_answer selectRegions selectRegionsAnswer || die echo 'CONSED_HOME='${EPREFIX}'/usr' > "${S}/99consed" doenvd "${S}/99consed" || die - sed -e "s#/usr/local/genome#${EPREFIX}/usr#" -i "${D}"/usr/bin/*.perl || die + sed -e "s#/usr/local/genome#${EPREFIX}/usr#" -i "${D}"/usr/bin/*.perl "${D}"/usr/bin/phredPhrap "${D}"/usr/bin/phredPhrapWithPhdBalls || die + sed -e 's#niceExe = "/bin/nice"#niceExe = "/usr/bin/nice"#' -i "${D}"/usr/bin/phredPhrap || die + sed -e 's#/wt1/gordon/genome#/usr/bin#' -i "${D}"/usr/bin/fastq2Phrap.perl || die dodoc README.txt *_announcement.txt || die } diff --git a/sci-biology/consed/consed-25.ebuild b/sci-biology/consed/consed-25.ebuild index d0a26e8..e7c9186 100644 --- a/sci-biology/consed/consed-25.ebuild +++ b/sci-biology/consed/consed-25.ebuild @@ -65,7 +65,9 @@ src_install() { solexa_example_answer selectRegions selectRegionsAnswer || die echo 'CONSED_HOME='${EPREFIX}'/usr' > "${S}/99consed" doenvd "${S}/99consed" || die - sed -e "s#/usr/local/genome#${EPREFIX}/usr#" -i "${D}"/usr/bin/*.perl || die + sed -e "s#/usr/local/genome#${EPREFIX}/usr#" -i "${D}"/usr/bin/*.perl "${D}"/usr/bin/phredPhrap "${D}"/usr/bin/phredPhrapWithPhdBalls || die + sed -e 's#niceExe = "/bin/nice"#niceExe = "/usr/bin/nice"#' -i "${D}"/usr/bin/phredPhrap || die + sed -e 's#/wt1/gordon/genome#/usr/bin#' -i "${D}"/usr/bin/fastq2Phrap.perl || die dodoc README.txt *_announcement.txt || die } diff --git a/sci-biology/consed/consed-26.ebuild b/sci-biology/consed/consed-26.ebuild index d0a26e8..e7c9186 100644 --- a/sci-biology/consed/consed-26.ebuild +++ b/sci-biology/consed/consed-26.ebuild @@ -65,7 +65,9 @@ src_install() { solexa_example_answer selectRegions selectRegionsAnswer || die echo 'CONSED_HOME='${EPREFIX}'/usr' > "${S}/99consed" doenvd "${S}/99consed" || die - sed -e "s#/usr/local/genome#${EPREFIX}/usr#" -i "${D}"/usr/bin/*.perl || die + sed -e "s#/usr/local/genome#${EPREFIX}/usr#" -i "${D}"/usr/bin/*.perl "${D}"/usr/bin/phredPhrap "${D}"/usr/bin/phredPhrapWithPhdBalls || die + sed -e 's#niceExe = "/bin/nice"#niceExe = "/usr/bin/nice"#' -i "${D}"/usr/bin/phredPhrap || die + sed -e 's#/wt1/gordon/genome#/usr/bin#' -i "${D}"/usr/bin/fastq2Phrap.perl || die dodoc README.txt *_announcement.txt || die } diff --git a/sci-biology/consed/consed-27.ebuild b/sci-biology/consed/consed-27.ebuild index d0a26e8..e7c9186 100644 --- a/sci-biology/consed/consed-27.ebuild +++ b/sci-biology/consed/consed-27.ebuild @@ -65,7 +65,9 @@ src_install() { solexa_example_answer selectRegions selectRegionsAnswer || die echo 'CONSED_HOME='${EPREFIX}'/usr' > "${S}/99consed" doenvd "${S}/99consed" || die - sed -e "s#/usr/local/genome#${EPREFIX}/usr#" -i "${D}"/usr/bin/*.perl || die + sed -e "s#/usr/local/genome#${EPREFIX}/usr#" -i "${D}"/usr/bin/*.perl "${D}"/usr/bin/phredPhrap "${D}"/usr/bin/phredPhrapWithPhdBalls || die + sed -e 's#niceExe = "/bin/nice"#niceExe = "/usr/bin/nice"#' -i "${D}"/usr/bin/phredPhrap || die + sed -e 's#/wt1/gordon/genome#/usr/bin#' -i "${D}"/usr/bin/fastq2Phrap.perl || die dodoc README.txt *_announcement.txt || die }
