Mothur GUI pcr.seq error

mothur bugs
1

Hi
I am relatively new to mothur and just started using the GUI…I have encountered a problem when running the PCR.seq to align the silva.bacteria to my region of interest…below is my coomand and the error I get…I have tried looking around to find out how to rectify this but I cant seem to find a solution.
mothur > pcr.seqs(fasta=C:\Users\lmbuthia\Desktop\mothurGUI\silva.bacteria.fasta, keepdots=F, start=11894, end=25319, processors=8)

Using 8 processors.
[ERROR]: locationsFile.txt is blank. Please correct.
[ERROR]: locationsFile.txt is blank. Please correct.

mothur > pcr.seqs(fasta=C:\Users\lmbuthia\Desktop\mothurGUI\silva.bacteria.fasta, keepdots=F, start=11894, end=25319, processors=8)

Using 8 processors.
Processing sequence: 100
Processing sequence: 100
Processing sequence: 100
Processing sequence: 100
Processing sequence: 100
Processing sequence: 100
Processing sequence: 100
Processing sequence: 100
Processing sequence: 200
Processing sequence: 200
Processing sequence: 200
Processing sequence: 200
Processing sequence: 200
Processing sequence: 200
Processing sequence: 200
Processing sequence: 200
Processing sequence: 300
Processing sequence: 300
Processing sequence: 300
Processing sequence: 300
Processing sequence: 300
Processing sequence: 300
Processing sequence: 300
Processing sequence: 300
Processing sequence: 400
Processing sequence: 400
Processing sequence: 400
Processing sequence: 400
Processing sequence: 400
Processing sequence: 400
Processing sequence: 400
Processing sequence: 400
Processing sequence: 500
Processing sequence: 500
Processing sequence: 500
Processing sequence: 500
Processing sequence: 500
Processing sequence: 500
Processing sequence: 500
Processing sequence: 500
Processing sequence: 600
Processing sequence: 600
Processing sequence: 600
Processing sequence: 600
Processing sequence: 600
Processing sequence: 600
Processing sequence: 600
Processing sequence: 600
Processing sequence: 700
Processing sequence: 700
Processing sequence: 700
Processing sequence: 700
Processing sequence: 700
Processing sequence: 700
Processing sequence: 700
Processing sequence: 700
Processing sequence: 800
Processing sequence: 800
Processing sequence: 800
Processing sequence: 800
Processing sequence: 800
Processing sequence: 800
Processing sequence: 800
Processing sequence: 800
Processing sequence: 900
Processing sequence: 900
Processing sequence: 900
Processing sequence: 900
Processing sequence: 900
Processing sequence: 900
Processing sequence: 900
Processing sequence: 900
Processing sequence: 1000
Processing sequence: 1000
Processing sequence: 1000
Processing sequence: 1000
Processing sequence: 1000
Processing sequence: 1000
Processing sequence: 1000
Processing sequence: 1000
Processing sequence: 1100
Processing sequence: 1100
Processing sequence: 1100
Processing sequence: 1100
Processing sequence: 1100
Processing sequence: 1100
Processing sequence: 1100
Processing sequence: 1100
Processing sequence: 1200
Processing sequence: 1200
Processing sequence: 1200
Processing sequence: 1200
Processing sequence: 1200
Processing sequence: 1200
Processing sequence: 1200
Processing sequence: 1200
Processing sequence: 1300
Processing sequence: 1300
Processing sequence: 1300
Processing sequence: 1300
Processing sequence: 1300
Processing sequence: 1300
Processing sequence: 1300
Processing sequence: 1300
Processing sequence: 1400
Processing sequence: 1400
Processing sequence: 1400
Processing sequence: 1400
Processing sequence: 1400
Processing sequence: 1400
Processing sequence: 1400
Processing sequence: 1400
Processing sequence: 1500
Processing sequence: 1500
Processing sequence: 1500
Processing sequence: 1500
Processing sequence: 1500
Processing sequence: 1500
Processing sequence: 1500
Processing sequence: 1500
Processing sequence: 1600
Processing sequence: 1600
Processing sequence: 1600
Processing sequence: 1600
Processing sequence: 1600
Processing sequence: 1600
Processing sequence: 1600
Processing sequence: 1600
Processing sequence: 1700
Processing sequence: 1700
Processing sequence: 1700
Processing sequence: 1700
Processing sequence: 1700
Processing sequence: 1700
Processing sequence: 1700
Processing sequence: 1700
Processing sequence: 1800
Processing sequence: 1800
Processing sequence: 1800
Processing sequence: 1800
Processing sequence: 1800
Processing sequence: 1800
Processing sequence: 1800
Processing sequence: 1800
Thread Processing sequence: 1869
Thread Processing sequence: 1869
Thread Processing sequence: 1869
Processing sequence: 1873
Thread Processing sequence: 1869
Thread Processing sequence: 1869
Thread Processing sequence: 1869
Thread Processing sequence: 1869
[ERROR]: locationsFile.txt is blank. Please correct.

2

Could someone please assist me…I am still getting the above mentioned error…I have set the output and input preferences as per the SOP I have set the directory and every step before the pcr.seq step runs correctly but everytime I run the PCR.seq I still get the same error…locations file is empty please correct…
What could I be doing wrong…I have also specified the start and end postions after running aligning my primers based on an ecoli template using my primers…I am stuck and dont know how to go on…

3

The command is actually running correctly, just reporting errors incorrectly. I will be releasing a version 1.33.2 later today to remove the unnecessary error messages.

4

Ok thanks for letting me know…