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Batch mode cannot be executed from config file #199

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DaniDelHoyo opened this issue May 16, 2023 · 1 comment
Open

Batch mode cannot be executed from config file #199

DaniDelHoyo opened this issue May 16, 2023 · 1 comment
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enhancement New feature or request

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@DaniDelHoyo
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Seems like when the batch input mode is specified from the config file, vina (as installed from conda, AutoDock Vina 58016d8-mod) does not recognize the batch option and tries to read the batch regular expression (input_dir/*.pdbqt) as a file, resulting in an error. I can always specify the batch option from the command line, so it is not a big deal, but still might be worth check in.

------ Command --------

vina --config configFile.txt

------ Config file --------

batch = ./tmp/*.pdbqt
scoring = ad4
maps = 1s63_tz
center_x = 11.148385089189023
center_y = 125.14929904879297
center_z = 1.9764267131155862
size_x = 70.0
size_y = 70.0
size_z = 70.0
dir = .
cpu = 4
exhaustiveness = 3
max_evals = 0
num_modes = 2
min_rmsd = 2.0
verbosity = 2

----- Error ------

Scoring function : ad4
Exhaustiveness: 3
CPU: 4
Verbosity: 2

Reading AD4.2 maps ... done.

Error: could not open "./tmp/*.pdbqt" for reading.

----- Alternative ------

Remove batch line from config file
Command: vina --batch ./tmp/
.pdbqt --config configFile.txt

@diogomart diogomart added the enhancement New feature or request label Jun 6, 2023
@rwxayheee rwxayheee added this to the Maintenance Release milestone Jan 11, 2025
@rwxayheee
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Added to Maintenance Release. We will look at conda-forge feedstock and whether this is caused by a different patch version, or a bug we can fix.

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