Hello Stefanie, There is currently no such argument but it is a trivial thing to hack in to the source code - the attached patch against EMBOSS-6.0.1 would do it by adding a '-originalformat' switch.
As it stands, the output is provided in what was deemed a more easily digestible format. Out of interest, is there a specific reason why you need the original output format e.g. do you use a subsequent application that requires it? We try to be flexible if there's reasonable demand for something. HTH Alan > Hi! > > Is there an argument in the eprimer 3 to get an alternative output format? > > Something like this, which I got once from primer3 running on a server: > > PRIMER_SEQUENCE_ID=HF15E08r > SEQUENCE=GCATGTAATAATGCCAAAGCTCACAGCTGCAGTTGAATCTTGGGACCCGCGGAGCGAGAATGTACCAATCCATGTATGGGTACACCCATGGCTGCCAACTCTAGGGCAAAGGATAGATACACTGTGCCACTCTATCCGGTACAAGCTGAGTAGTGTCCTCCAATTATGGCAAGCTCACGATTCATCAGCTTATGCTGTGCTATCTCCATGGAAGGGTGTATTTGATCCAGCAAGTTGGGAAGACTTGATAGTGCGTTATATCATTCCTAAACTGAAAATGGCACTCCAGGAGTTCCAGATTAACCCAGCAAGCCAAAAGTTTGACCAGTTTAACTGGGTTATGATCTGGGCTTCTGCTGTCCCGGTACACCATATGGTCCATATGTTGGAAGTTGATTTCTTTAGCAAGTGGCAGCTGGTTTTGTACCATTGGCTGAGCTCACCAAATCCTGATTTCAATGAGATAATGAATTGGTAT > PRIMER_PRODUCT_SIZE_RANGE=500-1000 450-500 400-450 350-400 300-350 250-300 > 200-250 150-200 > PRIMER_OPT_TM=60.0 > PRIMER_MIN_TM=58.0 > PRIMER_MAX_TM=65.0 > PRIMER_MAX_DIFF_TM=3.0 > PRIMER_DNA_CONC=420 > PRIMER_NUM_RETURN=1 > PRIMER_PAIR_PENALTY=0.8691 > PRIMER_LEFT_PENALTY=0.708329 > PRIMER_RIGHT_PENALTY=0.160746 > PRIMER_LEFT_SEQUENCE=GCATGTAATAATGCCAAAGC > PRIMER_RIGHT_SEQUENCE=TTGAAATCAGGATTTGGTGA > PRIMER_LEFT=0,20 > PRIMER_RIGHT=458,20 > PRIMER_LEFT_TM=59.292 > PRIMER_RIGHT_TM=60.161 > PRIMER_LEFT_GC_PERCENT=40.000 > PRIMER_RIGHT_GC_PERCENT=35.000 > PRIMER_LEFT_SELF_ANY=7.00 > PRIMER_RIGHT_SELF_ANY=8.00 > PRIMER_LEFT_SELF_END=2.00 > PRIMER_RIGHT_SELF_END=2.00 > PRIMER_LEFT_END_STABILITY=8.5000 > PRIMER_RIGHT_END_STABILITY=7.9000 > PRIMER_PAIR_COMPL_ANY=5.00 > PRIMER_PAIR_COMPL_END=3.00 > PRIMER_PRODUCT_SIZE=459 > > Thanks in advance! > Stefanie > _______________________________________________ > EMBOSS mailing list > [email protected] > http://lists.open-bio.org/mailman/listinfo/emboss >
ep3hack_patch.gz
Description: GNU Zip compressed data
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