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Hello --
I've been trying to run REforge on your example data, but I keep running into the same error:
WARNING:root:Error in score_sequence_with_stubb: Command 'stubb_noPseudoCount TACCCACACGTACTT…
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Dear author,
I am running the example data: `REforge.py data/tree_simulation.nwk data/motifs.wtmx data/species_lost_simulation.txt elements_simul.ls --windowsize 200 --scorefile scores_simulation -b…
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@flapka before your last day friday would like to make sure I good representative examples of mms IDs and their corresponding bibids, as well as how to index the 852, 541s. I assume we need to have l…
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hello，Michael
Thanks for your wonderful software.
In recent days, I want to use it for my analysis. I had installed it very well follow your instruction.
```
$REforge.py -h
usage: REforge.py [-…
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@BarakKatzir has been developing the [`types-scipy-sparse`](https://github.com/BarakKatzir/types-scipy-sparse) stub package for `scipy.sparse`. A large portion appears to more complete that the `scipy…
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Hello
Without a ThirteenAG's WS fix and fixed string in Nvidia Inspector game starts, but when i use the fix game won't start.
Please, can it be fixed? The maximum resolution which i can set is 16…
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Dear author,
I have downloaded motif files from JASPAR database and the format is like:
```
>MA0002.3 Runx1
A [ 123 57 0 87 0 17 10 131 500 ]
C [ 1072 …
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Hi, i want organizate my stubb folder like this:
- stubbs
- data
- enpoints
This is to be able to separate the endpoints from the stubby depending on the different modules and not just ha…
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Dear author,
I noticed the element_sequences/el137_10000.fa file in the example directory include sequences in the ancestral node. However, I can not know how to get the sequences in the ancestral n…
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It looks like .map files were changed to be compatible with 64-bit app and trying to open them results in various errors.