"Tax4Fun2_ReferenceData_v2/blast_bin/bin/blastn.exe' not found"

[EsbergA]

Dear all,
I running the example files using the example code but I get the same error everytime:
"Tax4Fun2_ReferenceData_v2/blast_bin/bin/blastn.exe' not found"

I have extracted the folder and as I see it everything should be in place, any suggestions?

modify the following 8 lines as needed

query_otu_seq = 'demo_OTU.fasta' # input OTU sequence file
query_otu_table = 'demo_OTU_table.csv' # input OTU table
pwd_op_folder = 'C:/Users/anes0001/Documents/Tax4Fun2/out1' # output directory
pwd_ref_data = 'C:/Users/anes0001/Documents/Tax4Fun2/Tax4Fun2_ReferenceData_v2' # path to the default database (i.e., Tax4Fun2_ReferenceData_v2), need to be decompressed before use
norm_by_cn = TRUE # normalize_by_copy_number (TRUE or FALSE)
norm_path = TRUE # normalize_pathways (TRUE or FALSE)
iden = 0.97 # min_identity_to_reference, please modify as needed
num_of_threads = 2 # number of CPU cores to use, please modify as needed

predict functions

runRefBlast(path_to_otus = query_otu_seq,
path_to_reference_data = pwd_ref_data,
path_to_temp_folder = pwd_op_folder,
database_mode = "Ref99NR",
use_force = T,
num_threads = num_of_threads)

makeFunctionalPrediction(path_to_otu_table = query_otu_table,
path_to_reference_data = pwd_ref_data,
path_to_temp_folder = pwd_op_folder,
database_mode = "Ref99NR",
normalize_by_copy_number = norm_by_cn,
min_identity_to_reference = iden,
normalize_pathways = norm_path)

Best regards,
Anders

[stalin-antony]

You have to follow this step to solve the issue. (Mostly this problem occurs in the Windows version)

1. If you are using R studio in Windows, try to Install the standalone version of the BLAST (https://ftp.ncbi.nlm.nih.gov/blast/executables/LATEST/)
2. Once you have done the installation, go to the installation directory in Windows, (Example: C:\Program Files\NCBI\blast-2.15.0+\bin)
3. copy all the binary files from the folder, and paste (replace) them into the binary folder of Tax4Fun2_ReferenceData_v2 (Tax4Fun2_ReferenceData_v2\blast_bin\bin).
4. That's it. Now you can run the command. It will work.

good luck....

Dr. Antony Stalin