Hi Melissa,
After you use split, there is no a longer a model with both upper- and lower-case chain IDs (since each model is now only one chain) and so the case is ignored.  After splitting you would have to specify by model number instead, e.g. #0.25.  It is only in models with both upper- and lower-case chain IDs that the case you type matters.
Elaine

On Sep 28, 2016, at 9:53 AM, Melissa Jurica <mjurica@ucsc.edu> wrote:

Hmm.  If I have a command file with the following, both chains end up being called smb1_b.  Am I missing something?  Prior to running this I used the “split” command to separate the chains into sub-models.

setattr m name  Brr2_B #0:.B
setattr m name  smb1_b #0:.b

Melissa

On Sep 28, 2016, at 9:43 AM, Elaine Meng <meng@cgl.ucsf.edu> wrote:

Hi Melissa,
This is already done.  Although chain-ID capitalization is ignored when the file has only capitalized IDs, when both are present, the upper- or lower-case that you type is honored.  I tested by opening 5GM6, and making sure that the following give different results:

sel :.a
sel :.A

Best,
Elaine
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Elaine C. Meng, Ph.D.
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

On Sep 27, 2016, at 4:24 PM, Melissa Jurica <mjurica@ucsc.edu> wrote:

Hi-
Is it possible to differentiate between chain ID’s that are in upper vs. lower case (i.e. A vs. a) in the command line?  Spliceosome complexes have too many chains (ex. 5GM6).
Thanks,
Melissa