MSTA issue
Posted: Fri Dec 16, 2022 8:09 pm
I'm trying to run USalign locally but I keep getting this error:
@MacBook-Pro-6 dino_models % USalign -dir dino_models/ input_list -suffix .pdb -mm 4
Warning! Cannot parse file: dino_models/ALEFU_ABO47877_HLP.pdb. Chain number 0.
Warning! Cannot parse file: dino_models/BREMI_REEF_HLP.pdb. Chain number 0.
Warning! Cannot parse file: dino_models/CRYCO_Q39474_HCC.pdb. Chain number 0.
Warning! Cannot parse file: dino_models/KARVE_ABV22220_HLP.pdb. Chain number 0.
Warning! Cannot parse file: dino_models/LINPO_Q84U55_HLP.pdb. Chain number 0.
Warning! Cannot parse file: dino_models/PFIPI_ABI14231_HLP.pdb. Chain number 0.
Warning! Cannot parse file: dino_models/POLGL_CAE8636195_HLP.pdb. Chain number 0.
Warning! Cannot parse file: dino_models/PROMI_Q6YND9_HLP.pdb. Chain number 0.
Warning! Cannot parse file: dino_models/PYRLU_AAO14678_HLP.pdb. Chain number 0.
Warning! Cannot parse file: dino_models/SYMKB_CAE794751_HCC.pdb. Chain number 0.
ERROR! <2 chains for multiple alignment
All .pdb files are in the set directory, and the input list looks like this:
ALEFU_ABO47877_HLP
BREMI_REEF_HLP
CRYCO_Q39474_HCC
KARVE_ABV22220_HLP
LINPO_Q84U55_HLP
PFIPI_ABI14231_HLP
POLGL_CAE8636195_HLP
PROMI_Q6YND9_HLP
PYRLU_AAO14678_HLP
SYMKB_CAE794751_HCC
I've tried with the list having .pdb extensions and without to no avail.
Would you be able to help me out? I'm basing the input list off of the example input list from mTM-align source download.
Thank you
@MacBook-Pro-6 dino_models % USalign -dir dino_models/ input_list -suffix .pdb -mm 4
Warning! Cannot parse file: dino_models/ALEFU_ABO47877_HLP.pdb. Chain number 0.
Warning! Cannot parse file: dino_models/BREMI_REEF_HLP.pdb. Chain number 0.
Warning! Cannot parse file: dino_models/CRYCO_Q39474_HCC.pdb. Chain number 0.
Warning! Cannot parse file: dino_models/KARVE_ABV22220_HLP.pdb. Chain number 0.
Warning! Cannot parse file: dino_models/LINPO_Q84U55_HLP.pdb. Chain number 0.
Warning! Cannot parse file: dino_models/PFIPI_ABI14231_HLP.pdb. Chain number 0.
Warning! Cannot parse file: dino_models/POLGL_CAE8636195_HLP.pdb. Chain number 0.
Warning! Cannot parse file: dino_models/PROMI_Q6YND9_HLP.pdb. Chain number 0.
Warning! Cannot parse file: dino_models/PYRLU_AAO14678_HLP.pdb. Chain number 0.
Warning! Cannot parse file: dino_models/SYMKB_CAE794751_HCC.pdb. Chain number 0.
ERROR! <2 chains for multiple alignment
All .pdb files are in the set directory, and the input list looks like this:
ALEFU_ABO47877_HLP
BREMI_REEF_HLP
CRYCO_Q39474_HCC
KARVE_ABV22220_HLP
LINPO_Q84U55_HLP
PFIPI_ABI14231_HLP
POLGL_CAE8636195_HLP
PROMI_Q6YND9_HLP
PYRLU_AAO14678_HLP
SYMKB_CAE794751_HCC
I've tried with the list having .pdb extensions and without to no avail.
Would you be able to help me out? I'm basing the input list off of the example input list from mTM-align source download.
Thank you