Author: christophgil-guest Date: 2012-06-19 05:37:48 +0000 (Tue, 19 Jun 2012) New Revision: 11379
Modified: trunk/packages/strap/trunk/debian/bin/strap_util_toClustal trunk/packages/strap/trunk/debian/bin/strap_util_toFasta trunk/packages/strap/trunk/debian/bin/strap_util_toMultipleFasta trunk/packages/strap/trunk/debian/bin/toXXX.sh trunk/packages/strap/trunk/debian/control trunk/packages/strap/trunk/debian/man/strap_util_toClustal.1 trunk/packages/strap/trunk/debian/man/strap_util_toFasta.1 trunk/packages/strap/trunk/debian/man/strap_util_toMultipleFasta.1 Log: Fixed shell scripts Modified: trunk/packages/strap/trunk/debian/bin/strap_util_toClustal =================================================================== --- trunk/packages/strap/trunk/debian/bin/strap_util_toClustal 2012-06-19 03:55:02 UTC (rev 11378) +++ trunk/packages/strap/trunk/debian/bin/strap_util_toClustal 2012-06-19 05:37:48 UTC (rev 11379) @@ -18,6 +18,6 @@ # which would set heap size to 500 Megabytes. -$JAVA_HOME/bin/java $xmx -cp /usr/lib/strap-base/strap-protein-alignment-1.jar charite.christo.strap.Strap -toClustal +$JAVA_HOME/bin/java $xmx -cp /usr/lib/strap-base/strap-protein-alignment-1.jar charite.christo.strap.Strap -toClustal $* Modified: trunk/packages/strap/trunk/debian/bin/strap_util_toFasta =================================================================== --- trunk/packages/strap/trunk/debian/bin/strap_util_toFasta 2012-06-19 03:55:02 UTC (rev 11378) +++ trunk/packages/strap/trunk/debian/bin/strap_util_toFasta 2012-06-19 05:37:48 UTC (rev 11379) @@ -18,6 +18,6 @@ # which would set heap size to 500 Megabytes. -$JAVA_HOME/bin/java $xmx -cp /usr/lib/strap-base/strap-protein-alignment-1.jar charite.christo.strap.Strap -toFasta +$JAVA_HOME/bin/java $xmx -cp /usr/lib/strap-base/strap-protein-alignment-1.jar charite.christo.strap.Strap -toFasta $* Modified: trunk/packages/strap/trunk/debian/bin/strap_util_toMultipleFasta =================================================================== --- trunk/packages/strap/trunk/debian/bin/strap_util_toMultipleFasta 2012-06-19 03:55:02 UTC (rev 11378) +++ trunk/packages/strap/trunk/debian/bin/strap_util_toMultipleFasta 2012-06-19 05:37:48 UTC (rev 11379) @@ -18,6 +18,6 @@ # which would set heap size to 500 Megabytes. -$JAVA_HOME/bin/java $xmx -cp /usr/lib/strap-base/strap-protein-alignment-1.jar charite.christo.strap.Strap -toMultipleFasta +$JAVA_HOME/bin/java $xmx -cp /usr/lib/strap-base/strap-protein-alignment-1.jar charite.christo.strap.Strap -toMultipleFasta $* Modified: trunk/packages/strap/trunk/debian/bin/toXXX.sh =================================================================== --- trunk/packages/strap/trunk/debian/bin/toXXX.sh 2012-06-19 03:55:02 UTC (rev 11378) +++ trunk/packages/strap/trunk/debian/bin/toXXX.sh 2012-06-19 05:37:48 UTC (rev 11379) @@ -18,6 +18,6 @@ # which would set heap size to 500 Megabytes. -$JAVA_HOME/bin/java $xmx -cp /usr/lib/strap-base/strap-protein-alignment-1.jar charite.christo.strap.Strap -toXXX +$JAVA_HOME/bin/java $xmx -cp /usr/lib/strap-base/strap-protein-alignment-1.jar charite.christo.strap.Strap -toXXX $* Modified: trunk/packages/strap/trunk/debian/control =================================================================== --- trunk/packages/strap/trunk/debian/control 2012-06-19 03:55:02 UTC (rev 11378) +++ trunk/packages/strap/trunk/debian/control 2012-06-19 05:37:48 UTC (rev 11379) @@ -23,11 +23,12 @@ graphical user interface which follows the paradigms of modern user interfaces such as drag'n drop. The sequence alignment view and the Pymol 3D-visualization are tightly linked. Information can be - attached to residue selections such as free text notes as well as 3D - and 1D display styles. Figures can be created in publication - quality. The alignment can be exported in several formats: PDF, - MS-Word, HTML, Jalview, Multiple-Fasta, ClustalW, MSF, HSSP - see - http://3d-alignment.eu/ for details. Interactive alignments can be - published in Web-pages. For this purpose, HTML code is generated - automatically. Strap is scriptable and can be used by programs and - web-services to display sequence alignments and 3D-superpositions. + attached to residue selections such as free text notes, + cross-references as well as 3D and 1D display style commands. + Figures can be created in publication quality. The alignment can be + exported in several formats: PDF, MS-Word, HTML, Jalview, + Multiple-Fasta, ClustalW, MSF, HSSP - see http://3d-alignment.eu/ for + details. Interactive alignments can be published in Web-pages. For + this purpose, HTML code is generated automatically. Strap is + scriptable and can be used by programs and web-services to display + sequence alignments and 3D-superpositions. Modified: trunk/packages/strap/trunk/debian/man/strap_util_toClustal.1 =================================================================== --- trunk/packages/strap/trunk/debian/man/strap_util_toClustal.1 2012-06-19 03:55:02 UTC (rev 11378) +++ trunk/packages/strap/trunk/debian/man/strap_util_toClustal.1 2012-06-19 05:37:48 UTC (rev 11379) @@ -42,11 +42,11 @@ License GPL .SH "SEE ALSO" - -.BR jalview (1) -.BR clustalx (1) -.BR seaview (1) -.BR boxshade (1) -.BR pymol (1) -.BR openastex (1) -.BR strap-text-viewer (1) +.BR strap_util_toClustal (1) +.BR strap_util_toFasta (1) +.BR strap_util_toMultipleFasta (1) +.BR strap-protein-alignment (1) +.BR sequenceconverter (1) +.BR bioperl (1) +.BR cdbfasta (1) +.BR squizz (1) Modified: trunk/packages/strap/trunk/debian/man/strap_util_toFasta.1 =================================================================== --- trunk/packages/strap/trunk/debian/man/strap_util_toFasta.1 2012-06-19 03:55:02 UTC (rev 11378) +++ trunk/packages/strap/trunk/debian/man/strap_util_toFasta.1 2012-06-19 05:37:48 UTC (rev 11379) @@ -42,11 +42,11 @@ License GPL .SH "SEE ALSO" - -.BR jalview (1) -.BR clustalx (1) -.BR seaview (1) -.BR boxshade (1) -.BR pymol (1) -.BR openastex (1) -.BR strap-text-viewer (1) +.BR strap_util_toClustal (1) +.BR strap_util_toFasta (1) +.BR strap_util_toMultipleFasta (1) +.BR strap-protein-alignment (1) +.BR sequenceconverter (1) +.BR bioperl (1) +.BR cdbfasta (1) +.BR squizz (1) Modified: trunk/packages/strap/trunk/debian/man/strap_util_toMultipleFasta.1 =================================================================== --- trunk/packages/strap/trunk/debian/man/strap_util_toMultipleFasta.1 2012-06-19 03:55:02 UTC (rev 11378) +++ trunk/packages/strap/trunk/debian/man/strap_util_toMultipleFasta.1 2012-06-19 05:37:48 UTC (rev 11379) @@ -42,11 +42,11 @@ License GPL .SH "SEE ALSO" - -.BR jalview (1) -.BR clustalx (1) -.BR seaview (1) -.BR boxshade (1) -.BR pymol (1) -.BR openastex (1) -.BR strap-text-viewer (1) +.BR strap_util_toClustal (1) +.BR strap_util_toFasta (1) +.BR strap_util_toMultipleFasta (1) +.BR strap-protein-alignment (1) +.BR sequenceconverter (1) +.BR bioperl (1) +.BR cdbfasta (1) +.BR squizz (1) _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
