Commit 39fbaa2c authored by Sander Bollen's avatar Sander Bollen
Browse files

add missing primer_internal_opt_gc_percent parameter.

parent 74d516ea
......@@ -9,6 +9,7 @@ PRIMER_PICK_RIGHT_PRIMER=1
PRIMER_MIN_GC={{ settings.primer_min_gc }}
PRIMER_INTERNAL_MIN_GC={{ settings.primer_internal_min_gc }}
PRIMER_OPT_GC_PERCENT={{ settings.primer_opt_gc_percent }}
PRIMER_INTERNAL_OPT_GC_PERCENT={{ settings.primer_internal_opt_gc_percent }}
PRIMER_MAX_GC={{ settings.primer_max_gc }}
PRIMER_INTERNAL_MAX_GC={{ settings.primer_internal_max_gc }}
PRIMER_WT_GC_PERCENT_LT={{ settings.primer_wt_gc_percent_lt }}
......
......@@ -24,6 +24,13 @@
"minimum": 0,
"maximum" : 100
},
"primer_internal_opt_gc_percent": {
"description": "Equivalent parameter of primer_opt_gc_percent for the internal oligo",
"type": "number",
"default": 50,
"minimum": 0,
"maximum": 100
},
"primer_max_gc": {
"description": "Maximum GC-percentage of primers.",
"type": "number",
......
......@@ -9,6 +9,7 @@ PRIMER_PICK_RIGHT_PRIMER=1
PRIMER_MIN_GC=20
PRIMER_INTERNAL_MIN_GC=20
PRIMER_OPT_GC_PERCENT=50
PRIMER_INTERNAL_OPT_GC_PERCENT=50
PRIMER_MAX_GC=80
PRIMER_INTERNAL_MAX_GC=80
PRIMER_WT_GC_PERCENT_LT=0
......
......@@ -9,6 +9,7 @@ PRIMER_PICK_RIGHT_PRIMER=1
PRIMER_MIN_GC=30
PRIMER_INTERNAL_MIN_GC=30
PRIMER_OPT_GC_PERCENT=51
PRIMER_INTERNAL_OPT_GC_PERCENT=50
PRIMER_MAX_GC=81
PRIMER_INTERNAL_MAX_GC=81
PRIMER_WT_GC_PERCENT_LT=0.12
......
......@@ -9,6 +9,7 @@ PRIMER_PICK_RIGHT_PRIMER=1
PRIMER_MIN_GC=20
PRIMER_INTERNAL_MIN_GC=20
PRIMER_OPT_GC_PERCENT=50
PRIMER_INTERNAL_OPT_GC_PERCENT=50
PRIMER_MAX_GC=80
PRIMER_INTERNAL_MAX_GC=80
PRIMER_WT_GC_PERCENT_LT=0
......
......@@ -31,6 +31,7 @@ def test_none_settings():
"primer_min_gc": 20,
"primer_internal_min_gc": 20,
"primer_opt_gc_percent": 50,
"primer_internal_opt_gc_percent": 50,
"primer_max_gc": 80,
"primer_internal_max_gc": 80,
"primer_wt_gc_percent_lt": 0,
......@@ -62,6 +63,7 @@ def test_complete_settings(valid_settings):
"primer_min_gc": 30,
"primer_internal_min_gc": 30,
"primer_opt_gc_percent": 51,
"primer_internal_opt_gc_percent": 50,
"primer_max_gc": 81,
"primer_internal_max_gc": 81,
"primer_wt_gc_percent_lt": 0.12,
......@@ -94,6 +96,7 @@ def test_partial_settings(valid_partial_settings):
"primer_min_gc": 20,
"primer_internal_min_gc": 20,
"primer_opt_gc_percent": 50,
"primer_internal_opt_gc_percent": 50,
"primer_max_gc": 80,
"primer_internal_max_gc": 80,
"primer_wt_gc_percent_lt": 0,
......
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