sci-biology/tgi-tools - QA: quoting, formatting, nomirror -> mirror etc.

svn path=/sunrise/; revision=2284

3 files changed, 26 insertions, 18 deletions

diff --git a/sci-biology/tgi-tools/ChangeLog b/sci-biology/tgi-tools/ChangeLog
index 1ef5e7ffb..2c63ce421 100644
--- a/sci-biology/tgi-tools/ChangeLog
+++ b/sci-biology/tgi-tools/ChangeLog
@@ -2,11 +2,14 @@
 # Copyright 1999-2006 Gentoo Foundation; Distributed under the GPL v2
 # $Header: $
 
+  12 Dec 2006; Jakub Moc <jakub@gentoo.org> tgi-tools-0.1.ebuild:
+  QA: quoting, formatting, nomirror -> mirror etc.
+
   12 Dec 2006; Andrei K. (azazello) <gentoo@horizon.ath.cx>
   tgi-tools-0.1.ebuild:
   add pvm use flag, install docs
 
   12 Dec 2006; Andrei K. (azazello) <gentoo@horizon.ath.cx>
   +tgi-tools-0.1.ebuild, +metadata.xml:
-  New ebuild, see http://bugs.gentoo.org/show_bug.cgi?id=157827
+  New ebuild, Bug 157827
 
diff --git a/sci-biology/tgi-tools/Manifest b/sci-biology/tgi-tools/Manifest
index 707071de4..9f237ed5a 100644
--- a/sci-biology/tgi-tools/Manifest
+++ b/sci-biology/tgi-tools/Manifest
@@ -9,14 +9,14 @@ DIST tclust.tar.gz 8864 RMD160 e77a8ce86fa779bbce7c46efbce2245ec7735681 SHA1 357
 DIST tgi_cpp_library.tar.gz 58212 RMD160 a85d0e0232a3956f93e521a73075d81d5ecfaaf3 SHA1 1039291f5f0ca617d025bcfacf4f271a3a225001 SHA256 555a81a63233d725868f6179cf3f5d74cceaa040058e2e4ded20f95487c89875
 DIST trimpoly.tar.gz 12562 RMD160 7345812dbbcea3d7fd2018ba1b04254863d171a4 SHA1 3558e9663cba6e6c179ca6f9a019f95d7aa1d4db SHA256 aa8f4a47d45ee534a15edf8e325f341a72d0ce0fa659ccfd8591c15bef44da4f
 DIST zmsort.tar.gz 5537 RMD160 cf6599dbd417f5ea50ec41db7909a2415ac28e68 SHA1 27a88033d99da8671fcae598f21e5b8cb7089e40 SHA256 32c5b72e22ae0fbd1784174dcff74e1a40817e29e98b2a0a32a21d83ace6b7fd
-EBUILD tgi-tools-0.1.ebuild 1567 RMD160 9039ca14fcfb600e11ba46f2e0f5f410f4021af9 SHA1 b9715dc411512d9832433411e91dda02ff8e5554 SHA256 5a7b9a5beedc1eb44a98c5329ca38526baaf6ad5299d55d8d120f8bc0394b519
-MD5 61b7a81382df690a1e1f60dde85710ee tgi-tools-0.1.ebuild 1567
-RMD160 9039ca14fcfb600e11ba46f2e0f5f410f4021af9 tgi-tools-0.1.ebuild 1567
-SHA256 5a7b9a5beedc1eb44a98c5329ca38526baaf6ad5299d55d8d120f8bc0394b519 tgi-tools-0.1.ebuild 1567
-MISC ChangeLog 405 RMD160 6612d532ce3afc63f8d1be37f5dceba5c221975c SHA1 62c0af381287ebbafca34c9772f461b7aaf6c5db SHA256 307dc4a0a152bf298ea650f0e52740629e11094b5e70d6ae30e5d8e6245d0ec4
-MD5 21f7e1aa29102788be68dd9780efc1a4 ChangeLog 405
-RMD160 6612d532ce3afc63f8d1be37f5dceba5c221975c ChangeLog 405
-SHA256 307dc4a0a152bf298ea650f0e52740629e11094b5e70d6ae30e5d8e6245d0ec4 ChangeLog 405
+EBUILD tgi-tools-0.1.ebuild 1575 RMD160 b8d94071b0f48b886c607164961234d14066ff04 SHA1 a62c856b44c2b34d718e7b9a96da03fae1421f06 SHA256 2ea1e37949518e3eb1ba0a7563fc1311bb976a9ff5280695886e0a4e669685e9
+MD5 991a439b6827796d2e3767f347aab5fc tgi-tools-0.1.ebuild 1575
+RMD160 b8d94071b0f48b886c607164961234d14066ff04 tgi-tools-0.1.ebuild 1575
+SHA256 2ea1e37949518e3eb1ba0a7563fc1311bb976a9ff5280695886e0a4e669685e9 tgi-tools-0.1.ebuild 1575
+MISC ChangeLog 484 RMD160 a90770337c35d5378da40c36ece73afafc4e1a43 SHA1 8713e22d67d6995341573e2b2303b470af96e2fc SHA256 e0573554b6d6494e4bceed303dc09099c4ea9a75bb574f774fe613f06828787b
+MD5 38b7cf011c81ca454ac5a655ad36c2d9 ChangeLog 484
+RMD160 a90770337c35d5378da40c36ece73afafc4e1a43 ChangeLog 484
+SHA256 e0573554b6d6494e4bceed303dc09099c4ea9a75bb574f774fe613f06828787b ChangeLog 484
 MISC metadata.xml 170 RMD160 645927a396fdc21cdeb089fe42c5397332420ea6 SHA1 ac7f48a14fec325926f9ce1be8fbf1f311b4f2e4 SHA256 d797a2ec6f9dc516c9f9c1a758ee87ad3e8c43101b5dc76c2f872d5bd4639b42
 MD5 1e678929a9fec6632e227bdf2262e9a1 metadata.xml 170
 RMD160 645927a396fdc21cdeb089fe42c5397332420ea6 metadata.xml 170
diff --git a/sci-biology/tgi-tools/tgi-tools-0.1.ebuild b/sci-biology/tgi-tools/tgi-tools-0.1.ebuild
index 97b4a4a73..3d0b2bcb9 100644
--- a/sci-biology/tgi-tools/tgi-tools-0.1.ebuild
+++ b/sci-biology/tgi-tools/tgi-tools-0.1.ebuild
@@ -2,8 +2,6 @@
 # Distributed under the terms of the GNU General Public License v2
 # $Header: $
 
-# http://bugs.gentoo.org/show_bug.cgi?id=157827
-
 DESCRIPTION="The Gene Index Project utilities for genomic data processing: seqclean, cdbfasta, psx"
 LICENSE="Artistic"
 HOMEPAGE="http://compbio.dfci.harvard.edu/tgi/software/"
@@ -12,10 +10,10 @@ IUSE="pvm"
 KEYWORDS="~x86"
 
 for i in seqclean/{seqclean,mdust,trimpoly} cdbfasta/cdbfasta tgicl/{psx,pvmsx,zmsort,tclust,sclust,nrcl,tgi_cpp_library}; do
-	SRC_URI="${SRC_URI} ftp://occams.dfci.harvard.edu/pub/bio/tgi/software/${i}.tar.gz";
+	SRC_URI="${SRC_URI} ftp://occams.dfci.harvard.edu/pub/bio/tgi/software/${i}.tar.gz"
 done
 
-RESTRICT="nomirror"
+RESTRICT="mirror"
 
 DEPEND="pvm? ( sys-cluster/pvm )"
 RDEPEND=${DEPEND}
@@ -24,7 +22,9 @@ S=${WORKDIR}
 src_unpack() {
 	unpack {seqclean,mdust,trimpoly,cdbfasta,tgi_cpp_library}.tar.gz
 	for i in nrcl sclust tclust zmsort psx pvmsx; do
-		mkdir ${S}/${i}; cd ${S}/${i}; unpack ${i}.tar.gz
+		mkdir "${S}"/${i}
+		cd "${S}"/${i}
+		unpack ${i}.tar.gz
 	done
 }
 
@@ -32,14 +32,19 @@ src_compile() {
 	sed -i 's/use Mailer;/#use Mailer;/' ${S}/seqclean/seqclean
 	sed -i 's/-V\t\tverbose/-V\t\tverbose\\/' ${S}/zmsort/zmsort.cpp
 	# TODO: fix error in nrcl
-	for i in cdbfasta mdust psx sclust tclust trimpoly zmsort `use pvm && echo pvmsx`; do
+	for i in cdbfasta mdust psx sclust tclust trimpoly zmsort $(use pvm && echo pvmsx); do
 		sed -i 's/CFLAGS[ ]*=/CFLAGS :=/; s/-D_REENTRANT/-D_REENTRANT \${CFLAGS}/; s/CFLAGS[ ]*:=[ ]*-O2$//' ${S}/${i}/Makefile
-		(cd ${S}/${i}; emake) || die
+		cd ${S}/${i} || die "cd ${i} failed"
+		emake || die "emake failed in ${i}"
 	done
 }
 
 src_install() {
 	dobin cdbfasta/{cdbfasta,cdbyank} seqclean/{seqclean,cln2qual,bin/seqclean.psx}
-	for i in mdust psx sclust tclust trimpoly zmsort `use pvm && echo pvmsx`; do dobin ${i}/${i}; done
-	for i in cdbfasta seqclean; do newdoc ${i}/README README.${i}; done
+	for i in mdust psx sclust tclust trimpoly zmsort $(use pvm && echo pvmsx); do 
+		dobin ${i}/${i}
+	done
+	for i in cdbfasta seqclean; do 
+		newdoc ${i}/README README.${i}
+	done
 }