# Mothur GUI pcr.seq error **URL:** \ **Category:** mothur bugs\ **Created:** [March 1, 2014, 9:06am UTC](https://forum.mothur.org/t/mothur-gui-pcr-seq-error/1730 "2014-03-01T09:06:21Z")\ **Posts on this page:** 4\ **Page:** 1
**Author:** ![mbushy](https://avatars.discourse-cdn.com/v4/letter/m/b19c9b/32.png) [@mbushy](https://forum.mothur.org/u/mbushy)\ **Post date:** [March 1, 2014, 9:06am UTC](https://forum.mothur.org/t/mothur-gui-pcr-seq-error/1730/1 "2014-03-01T09:06:21Z")
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. ---
**Author:** ![mbushy](https://avatars.discourse-cdn.com/v4/letter/m/b19c9b/32.png) [@mbushy](https://forum.mothur.org/u/mbushy)\ **Post date:** [March 4, 2014, 2:52am UTC](https://forum.mothur.org/t/mothur-gui-pcr-seq-error/1730/2 "2014-03-04T02:52:46Z")
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… ---
**Author:** ![westcott](https://yyz2.discourse-cdn.com/flex036/user_avatar/forum.mothur.org/westcott/32/18_2.png) [@westcott](https://forum.mothur.org/u/westcott)\ **Post date:** [March 4, 2014, 11:54am UTC](https://forum.mothur.org/t/mothur-gui-pcr-seq-error/1730/3 "2014-03-04T11:54:54Z")
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. ---
**Author:** ![mbushy](https://avatars.discourse-cdn.com/v4/letter/m/b19c9b/32.png) [@mbushy](https://forum.mothur.org/u/mbushy)\ **Post date:** [March 4, 2014, 1:30pm UTC](https://forum.mothur.org/t/mothur-gui-pcr-seq-error/1730/4 "2014-03-04T13:30:25Z")
Ok thanks for letting me know…