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Special Forums News, Links, Events and Announcements Software Releases - RSS News Geneious 4.5.4 (Default branch) Post 302281380 by Linux Bot on Wednesday 28th of January 2009 09:40:09 PM
Old 01-28-2009
Geneious 4.5.4 (Default branch)

ImageGeneious is an integrated bioinformatics tool suite for manipulating, finding, sharing, and exploring biological data such as linear and circular DNA sequences, proteins, phylogenies, chromatograms, 3D structure information, publications, etc. It features sequence alignment and phylogenetic analysis, restriction analysis, contig assembly, access to biological databases at NCBI and elsewhere (PubMed, Nucleotide, PopSet, SNP, Structure, PFAM, etc.), BLAST, and more. It includes an API for creating your own plugins.License: Other/Proprietary License with Free TrialChanges:
This release fixes a couple of small bugs, including crash and performance bugs when assembling and viewing contigs.Image

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GPIV_PROCESS-CHAIN(1)					      General Commands Manual					     GPIV_PROCESS-CHAIN(1)

NAME
gpiv_process-chain - Processes a pipe of Gpiv-tool command's. SYNOPSIS
gpiv_process-chain [-af string] [-h | -help] [-n | -none] [-c | -clean] [-fik] [-p | -print] [-pf -string] [-proc_*] [-t format] [-v | -version] filename DESCRIPTION
Gpiv_process-chain processes a pipe of gpiv commands. Image evaluation/interrogation with gpiv_rr is always included, image recording may be prepended before interrogation, validation and post-processes may be appended to the chain. The filename represents the name of the image to be evaluated. The file naming conventions are idententic to the output of the individual Gpivtools programs: in case the output are (validated/scaled) PIV data, the data will be directed to filename.piv, with -proc_vorty the output will be called filename.vor, with -proc_nstrain the output will be called filename.nstr and, finally, with with -proc_sstrain the output will be called filename.sstr. This program does not use the parameter resources from libgpiv. Options -af string Append string to file-base name. -h | --help On-line help. -n | --none Suppresses real execution. -c | -clean Cleans up: removes raw image data and header. -fik Use fi-keyline for filtering gpiv parms from README. -p | --print Prints parameters, command line options and input and output filenames to stdout. -pf string Prepend string to file-base name. -proc_* Defines processes to be included in the chain. * is substituted by: imgrec, valid, scale, manipiv, flipx, flipy, revert, rot90, rot180 and vorty or nstrain or sstrain. Vorty, nstrain and sstrain may not be used in combination with -t gpi. -t format Image type or format: hdf (.hdf), dav (.IMG) or a type as defined by ImageMagic's convert. Default is raw binary image (.r). -v | --version Prints version information to standard output, then exits successfully. filename Input image filename. Format may be: .r, .hdf (hdf), .IMG (davis), .png, .gif, .tif or.bmp. EXAMPLES
invoking: 'gpiv_process-chain -proc_valid -proc_scale testfile.png' will actually perform: gpiv_rr < image.png | gpiv_errvec > testfile.piv invoking: 'gpiv_process-chain -proc_imgrec -proc_valid -proc_scale testfile.png' will do: gpiv_recimg | gpiv_rr | gpiv_errvec | gpiv_scale > testfile.piv SEE ALSO
gpivtools AUTHOR
Gerber Van der Graaf 19 Januari 2005 GPIV_PROCESS-CHAIN(1)
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