Public bug reported:
Binary package hint: primer3
When designing only left or right primers, primer3 does output the full
output tag name for the primer when the input tag PRIMER_NUM_RETURN=
goes to 11 (or higher.)
$ cat /etc/lsb-release
DISTRIB_ID=Ubuntu
DISTRIB_RELEASE=7.10
DISTRIB_CODENAME=gutsy
DISTRIB_DESCRIPTION="Ubuntu 7.10"
$ dpkg -l primer3
Desired=Unknown/Install/Remove/Purge/Hold
| Status=Not/Installed/Config-f/Unpacked/Failed-cfg/Half-inst/t-aWait/T-pend
|/ Err?=(none)/Hold/Reinst-required/X=both-problems (Status,Err: uppercase=bad)
||/ Name Version
Description
+++-=================================-=================================-==================================================================================
ii primer3 1.1.1-1 Tool to
design flanking oligo nucleotides for DNA amplification
$ cat example.n11.input
PRIMER_SEQUENCE_ID=example
SEQUENCE=GTAGTCAGTAGACNATGACNACTGACGATGCAGACNACACACACACACACAGCACACAGGTATTAGTGGGCCATTCGATCCCGACCCAAATCGATAGCTACGATGACG
TARGET=37,21
PRIMER_OPT_SIZE=18
PRIMER_MIN_SIZE=15
PRIMER_MAX_SIZE=21
PRIMER_NUM_NS_ACCEPTED=1
PRIMER_FILE_FLAG=1
PRIMER_EXPLAIN_FLAG=1
PRIMER_NUM_RETURN=11
PRIMER_TASK=pick_left_only
=
$ primer3_core < example.n11.input | tail -20
PRIMER_LEFT_8_SELF_ANY=5.00
PRIMER_LEFT_8_SELF_END=2.00
PRIMER_LEFT_8_END_STABILITY=7.8000
PRIMER_LEFT_9_PENALTY=1.8066
PRIMER_LEFT_9_SEQUENCE=TCCCGACCCAAATCGATAG
PRIMER_LEFT_9=78,19
PRIMER_LEFT_9_TM=60.807
PRIMER_LEFT_9_GC_PERCENT=52.632
PRIMER_LEFT_9_SELF_ANY=6.00
PRIMER_LEFT_9_SELF_END=2.00
PRIMER_LEFT_9_END_STABILITY=5.6000
_10_PENALTY=1.8114
_10_SEQUENCE=TCGATCCCGACCCAAATC
_10=74,18
_10_TM=61.811
_10_GC_PERCENT=55.556
_10_SELF_ANY=4.00
_10_SELF_END=0.00
_10_END_STABILITY=6.9000
=
** Affects: primer3 (Ubuntu)
Importance: Undecided
Status: New
--
primer3 does not output complete primer name if only choosing left or right
primers
https://bugs.launchpad.net/bugs/191053
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