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Top Forums UNIX for Dummies Questions & Answers Find & Replace command - Fasta file Post 302580404 by Corona688 on Thursday 8th of December 2011 10:40:32 AM
Old 12-08-2011
Code:
awk '/^[^>]/ { gsub(/[^C]/, "-"); }' < infile > outfile

if awk doesn't work, try nawk or gawk.
 

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ucblinks(1B)					     SunOS/BSD Compatibility Package Commands					      ucblinks(1B)

NAME
ucblinks - adds /dev entries to give SunOS 4.x compatible names to SunOS 5.x devices SYNOPSIS
/usr/ucb/ucblinks [-e rulebase] [-r rootdir] DESCRIPTION
ucblinks creates symbolic links under the /dev directory for devices whose SunOS 5.x names differ from their SunOS 4.x names. Where possi- ble, these symbolic links point to the device's SunOS 5.x name rather than to the actual /devices entry. ucblinks does not remove unneeded compatibility links; these must be removed by hand. ucblinks should be called each time the system is reconfiguration-booted, after any new SunOS 5.x links that are needed have been created, since the reconfiguration may have resulted in more compatibility names being needed. In releases prior to SunOS 5.4, ucblinks used a nawk rule-base to construct the SunOS 4.x compatible names. ucblinks no longer uses nawk for the default operation, although nawk rule-bases can still be specifed with the -e option. The nawk rule-base equivalent to the SunOS 5.4 default operation can be found in /usr/ucblib/ucblinks.awk. OPTIONS
-e rulebase Specify rulebase as the file containing nawk(1) pattern-action statements. -r rootdir Specify rootdir as the directory under which dev and devices will be found, rather than the standard root directory /. FILES
/usr/ucblib/ucblinks.awk sample rule-base for compatibility links ATTRIBUTES
See attributes(5) for descriptions of the following attributes: +-----------------------------+-----------------------------+ | ATTRIBUTE TYPE | ATTRIBUTE VALUE | +-----------------------------+-----------------------------+ |Availability |SUNWscpu | +-----------------------------+-----------------------------+ SEE ALSO
devlinks(1M), disks(1M), ports(1M), tapes(1M), attributes(5) SunOS 5.10 13 Apr 1994 ucblinks(1B)
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