I was using the following index command to run sailfish. It worked before but not working anymore after installing the new version. Any suggestion would be very useful. Thanks!
$ sailfish index -t file.fasta -o sf -k 25
"Version Info: This is the most recent version of Sailfish
writing log to sf/logs/sailfish_index.log
RapMap Indexer
PARSE ERROR: Argument: -k (--klen)
Couldn't read argument value from string 'sf'
Brief USAGE:
foo [-n] [-k <positive integer less than 32>] -i -t [--]
[--version] [-h]
For complete USAGE and HELP type:
foo --help"
$ sailfish -h
"Allowed Options:
-v [ --version ] print version string
--no-version-check don't check with the server to see if this is the
latest version
-h [ --help ] produce help message
Sailfish v0.9.2
Please invoke sailfish with one of the following commands {index, quant, sf}.
For more information on the options for theses particular methods, use the -h
flag along with the method name. For example:
sailfish index -h
will give you detailed help information about the index command."
Hi,
I was using the following index command to run sailfish. It worked before but not working anymore after installing the new version. Any suggestion would be very useful. Thanks!
$ sailfish index -t file.fasta -o sf -k 25
"Version Info: This is the most recent version of Sailfish writing log to sf/logs/sailfish_index.log RapMap Indexer PARSE ERROR: Argument: -k (--klen) Couldn't read argument value from string 'sf'
Brief USAGE: foo [-n] [-k <positive integer less than 32>] -i -t [--]
[--version] [-h]
For complete USAGE and HELP type: foo --help"
$ sailfish -h
"Allowed Options: -v [ --version ] print version string --no-version-check don't check with the server to see if this is the latest version -h [ --help ] produce help message
Sailfish v0.9.2
Please invoke sailfish with one of the following commands {index, quant, sf}. For more information on the options for theses particular methods, use the -h flag along with the method name. For example:
sailfish index -h
will give you detailed help information about the index command."