Hi all, I have a heterogeneous collection of mtz files I'm trying to whip into some kind of standardized vocabulary shape, namely setting column names and types so that subsequent scripts can sensibly make maps and so forth. I have set up the ever-useful sftools to do most of this, but of course sftools scripts rely on one providing a series of answers to questions you think it is going to ask, and by its own admission it was designed to be used interactively and includes various "protections" which, also by its own admission, makes it harder to use it in batch mode... Because it finds files with interesting columns (e.g. only 1's and 0's) that prompt it to ask you unexpected questions (e.g. is this an X-plor Rfree column? despite the "Rfree_flag title and the 5% population of 1's ; ). , for which your prescribed answers no longer apply (and my log files end up with inane computer v computer dialogues like "You must answer Y or N! You must answer Y or N! You must answer...etc.")
So, presumably the number of exceptional cases is finite (though tedious) and I can just carry on dealing with them one after the other and learn to be a better coder, but... My question: is there some way to turn off these protections (i.e. please just read in the file without question!), or some version of SFTOOLS that is more batch-friendly about which I'm not yet aware? It would be nice to have something that can more programmatically interrogate mtz column headers and respond sensibly rather than this kind of 20 questions you do when you have to read the header and then parse the names and then ask a series of "is it Rfree?" "is it CV?" "is it bigger than a breadbox?" type stuff. Again, I know the sftools documentation is clear that the design goal was for interactive use and humans have little trouble with such questions, but when there might be several thousand of them... Thanks for any pointers or alternatives! Seth
