zhuanglab / matlab-storm Goto Github PK

Hi,

While running /MERFISH_analysis/example_scripts/library_design_example.m

Error seen as follows:

Designing primers for L1E1
Error using CheckParameter (line 142)
parallel is not a parallel.Pool object

Error in ParseVariableArguments (line 103)
CheckParameter(parameterValues{i}, defaults{ind, 2}, parameterNames{i});

Error in OTTable (line 93)
parameters = ParseVariableArguments(varargin, defaults, mfilename);

Error in library_design_example (line 431)
encodingProbeOTTable = OTTable(struct('Sequence', allSeqs), 15, 'verbose', true, ...

I'm wondering if you have any suggestions on fixing it?

Thank you for help!

Bests.

Where can I find 'Insight3' to download?

If the filename passed ends in _list.bin everything works great. If the filename ends in _alist.bin the script runs fine, claims to have written molecules, but the resulting .bin file is empty (size = 1byte).

If the target molecule list happens to be empty (size 1 byte) for some reason because the file was never fully written or otherwise corrupt, ReadMasterMoleculeList attempts to initialize an array with an impossible number of molecules / fields which will result in a computer crash:

 Version para
 Contains 1702126957 field
 Status: 1702126957
 Number of molecules in Frame 0: 543450483
 Compact Representation: 1

It would be better to return an error that the file is corrupt, the anticipated number of molecules does not match the file size, or something like that.

If a molecule list is saved in .txt format from Insight3, it will contain a valid column. But a bin file loaded into MATLAB using ReadMasterMoleculeList() has a column called density instead.
What does density mean ?