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? Andreas obviously knows the software better than we do - I had no idea it could do that.....! We'll get the "Usage" output updated for the next patch release. Cheers, Steve. On 6 Feb 2009, at 00:05, Agatha Lenartowicz wrote: > hi all ~ i would be grateful if someone could elucidate the complete > usage of the 'overlay' program. the official usage is as noted below > - however based on previous posts, it seems that this program can > also take other, quite valuable, input arguments (e.g., to spit out > a colourbar). > > furthermore i am wondering if 'overlay' can take in arguments to > specify unique *.lut's for the stats maps (e.g., if the colourbar in > the header is red-yellow but i'd like to display it in blue), or do > i need to somehow change the colourbar information in the header of > the stats file (if so... any tips on how this is done). > > many thanks in advance! > agatha > > > Usage: overlay <colour_type> <output_type> [-c] <background_image> > <bg_min> <bg_max> <stat_image_1> <s1_min> <s1_max> [stat_image_2 > s2min s2max] <output_image> > colour_type: 0=solid 1=transparent colours > output_type: 0=floating point (32 bit real) 1=integer (16 bit signed > integer) > -c : use checkerboard mask for overlay > <bg_min> <bg_max> can be replaced by -a for automatic estimation of > background display range > > previous threads, e.g., > https://www.jiscmail.ac.uk/cgi-bin/webadmin?A2=ind06&L=FSL&P=R4544 > https://www.jiscmail.ac.uk/cgi-bin/webadmin?A2=ind0703&L=FSL&P=R17534 > > --------------------------------------------------------------------------- Stephen M. Smith, Professor of Biomedical Engineering Associate Director, Oxford University FMRIB Centre FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK +44 (0) 1865 222726 (fax 222717) [log in to unmask] http://www.fmrib.ox.ac.uk/~steve ---------------------------------------------------------------------------