updating write_fasta.wiki

git-svn-id: http://biopieces.googlecode.com/svn/trunk@80 74ccb610-7750-0410-82ae-013aeee3265d

diff --git a/bp_usage/write_fasta b/bp_usage/write_fasta
deleted file mode 100644 (file)
index 8c2fbda..0000000
--- a/bp_usage/write_fasta
+++ /dev/null
@@ -1,26 +0,0 @@
-Author:         Martin Asser Hansen - Copyright (C) - All rights reserved
-
-Contact:        mail@maasha.dk
-
-Date:           August 2007
-
-License:        GNU General Public License version 2 (http://www.gnu.org/copyleft/gpl.html)
-
-Description:    Write sequences in FASTA format.
-
-Usage:          ... | $script [options]
-
-Options:   [-x        | --no_stream]          -  Do not emit records.
-Options:   [-o <file> | --data_out=<file>]    -  Write result to file.
-Options:   [-w <int>  | --wrap=<int>]         -  Wrap sequences to a given width.
-Options:   [-I <file> | --stream_in=<file>]   -  Read input from stream file  -  Default=STDIN
-Options:   [-O <file> | --stream_out=<file>]  -  Write output to stream file  -  Default=STDOUT
-Options:   [-Z        | --compress]           -  Compress output using gzip.
-
-Examples:   ... | $script -x -w 80              -  Write entries wrapped to blocks of 80 to STDOUT.
-Examples:   ... | $script -x -o test.fna        -  Write entries to file 'test.fna'.
-Examples:   ... | $script -x -Z -o test.fna.gz  -  Write zipped entries to file 'test.fna.gz'.
-
-Keys in: SEQ_NAME  -  Sequence name.
-Keys in: Q_ID      -  Used as sequence name if no SEQ_NAME.
-Keys in: SEQ       -  Sequence.

diff --git a/bp_usage/write_fasta.wiki b/bp_usage/write_fasta.wiki
index 11ec7c4bbf191528402bb24d05743cb4ae7f3e74..dce18b42021833c9f024b839eeaae684c812d506 100644 (file)
--- a/bp_usage/write_fasta.wiki
+++ b/bp_usage/write_fasta.wiki
@@ -6,7 +6,10 @@ Write sequences from stream in FASTA format.
 
 ==Description==
 
-*write_fasta* writes sequence from the data stream in FASTA format. However, a FASTA entry will only be written if a SEQ key and a SEQ_NAME key is present. If a SEQ key is present and not SEQ_NAME, then the Q_ID key will be used as SEQ_NAME - if such a key is found.
+*write_fasta* writes sequence from the data stream in FASTA format. However,
+a FASTA entry will only be written if a SEQ key and a SEQ_NAME key is present.
+If a SEQ key is present and not SEQ_NAME, then the Q_ID key will be used as
+SEQ_NAME - if such a key is found.
 
 For more about the FASTA format:
 
@@ -52,6 +55,7 @@ Write zipped entries to file 'test.fna.gz'.
 ==See also==
 
 [read_fasta]
+
 [read_align]
 
 ==Author==