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[vecscreen] WARNING: readdb: wrong version of formatdb was used to make database #2
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Hi Molly
I am not maintaining this package. Please have a look at another tool
Thank you
…On Fri, Aug 27, 2021 at 9:53 PM mollydawson ***@***.***> wrote:
Hi there,
I am running removecScreen as the individual commands, and I am running
into an error that is outside my control in section two, adapter screen. I
have vecscreen installed and the adaptor contamination files downloaded,
and per the instruction, I made a makeblastdb of the
adaptors_for_screening_euks.fa file as follows:
*# BLAST v2.12.0*
makeblastdb ---dbtype nucl \
-in adaptors_for_screening_euks.fa \
-out adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db
*This resulted in these db files:*
adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db.ndb
adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db.nhr
adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db.nin
adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db.not
adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db.nsq
adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db.ntf
adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db.nto
*I then run vecscreen as follows:*
vecscreen \
-db adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db \
-f3 \
-i input.fasta \
-o output.txt
*I get the error message:*
[vecscreen] WARNING: readdb: wrong version of formatdb was used to make
database adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db.
[vecscreen] WARNING: readdb: wrong version of formatdb was used to make
database adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db.
[vecscreen] WARNING: readdb: wrong version of formatdb was used to make
database adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db.
[vecscreen] FATAL ERROR: Database
adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db was not found or does not
exist
Why is my database not compatible with vecscreen? It was made with BLAST
v2.12.0, is this version not compatible with vecscreen? How should the
vecscreen databse be built?
Thanks!
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Hi there,
I am running removecScreen as the individual commands, and I am running into an error that is outside my control in section two, adapter screen. I have vecscreen installed and the adaptor contamination files downloaded, and per the instruction, I made a makeblastdb of the adaptors_for_screening_euks.fa file as follows:
# BLAST v2.12.0
This resulted in these db files:
adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db.ndb
adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db.nhr
adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db.nin
adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db.not
adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db.nsq
adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db.ntf
adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db.nto
I then run vecscreen as follows:
I get the error message:
[vecscreen] WARNING: readdb: wrong version of formatdb was used to make database adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db.
[vecscreen] WARNING: readdb: wrong version of formatdb was used to make database adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db.
[vecscreen] WARNING: readdb: wrong version of formatdb was used to make database adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db.
[vecscreen] FATAL ERROR: Database adaptors_for_screening_euks_BLAST_v2.12.0_nucl_db was not found or does not exist
Why is my database not compatible with vecscreen? It was made with BLAST v2.12.0, is this version not compatible with vecscreen? How should the vecscreen databse be built?
Thanks!
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