On 12/09/2013 10:44 AM, daya wrote: ... > We’re taking a bit of a break from this project for now, but in the next > phase of the project will see if we can fix at least some of the bugs > identified if they haven’t already been.
When you do, note a couple of caveats for
Category: CIF_MISSINGLOOP
Frequency: 85
Description: cif misses a “loop_” line
Solution: Do an initial check that there is at least one loop_ line
in the expected place before attempting to do the conversion.
CIF is table-based and a table is formatted as
loop_ _name _name _name ... value value value ...
However, a table with only one row *may* be formatted as
_name value _name value _name value ...
instead. In your example the input mmCIF file is invalid: it has tables
of the first kind without the opening "loop_". That doesn't mean a CIF
file should have at least one loop_ line -- although in practice it'd be
hard to find one that doesn't.
Another issue is that in STAR (CIF) all whitespace is equal so what you
normally see in mmCIF files is just pretty-printing:
_name value
_name value
loop_
name_
name_
name_
value value value
Just FYI
--
Dimitri Maziuk
Programmer/sysadmin
BioMagResBank, UW-Madison -- http://www.bmrb.wisc.edu
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