def get_reaction(self):
rxn = MasterMix(self.buffers[self.transfer_type])
rxn.extra_percent = 20
rxn.extra_min_volume = '1 µL'
if isinstance(self.samples, int):
rxn.num_reactions = self.samples
else:
rxn['DNA'].name = ','.join(self.samples)
rxn.num_reactions = len(self.samples)
if x := self.num_spots:
rxn.num_reactions = x
def test_master_mix_scale(params):
mm = MasterMix()
mm.num_reactions = params['n']
mm.solvent = 'w'
mm.volume = params['vol_rxn']
mm['x'].volume = params['vol_x']
mm['w'].master_mix = True
mm['x'].master_mix = True
if 'fraction' in params:
mm.extra_fraction = params['fraction']
assert mm.extra_percent == pytest.approx(params['fraction'] * 100)
if 'percent' in params:
mm.extra_percent = params['percent']
assert mm.extra_fraction == pytest.approx(params['percent'] / 100)
if 'reactions' in params:
mm.extra_reactions = params['reactions']
if 'min_vol' in params:
mm.extra_min_volume = params['min_vol']
assert mm.get_scale() == pytest.approx(params['expected'])
import stepwise
from inform import plural
from stepwise import Protocol, Step, Footnote, MasterMix
p = Protocol()
n = 6
loading_buf = MasterMix("""\
Reagent Stock Volume MM?
====================== ===== ========= ===
water to 5.0 µL y
Bolt LDS sample buffer 4x 2.5 µL y
Bolt reducing agent 10x 1.0 µL y
""")
loading_buf.num_reactions = 2 * n
loading_buf.extra_percent = 50
protein_samples = MasterMix("""\
Reagent Stock Volume MM?
========================= ========= ========== ===
water to 10.0 µL y
loading buffer master mix 2x 5.0 µL y
BSA 500 ng/µL 1.0 µL y
""")
protein_samples.num_reactions = n
protein_samples.extra_percent = 10
dna_samples = MasterMix("""\
Reagent Stock Volume MM?
========================= ========= ========== ===
{huh}
- Incubate at 37°C for 15 min.
"""
bal31 = MasterMix("""\
Reagent Stock Volume MM?
================ ====== ======== ===
water to 50 µL yes
dCas9-PCV2-DNA 100 nM 10 µL
NEBuffer 3.1 [2] 10x 5 µL yes
BAL-31 1 U/µL 1 µL
""")
bal31.hold_ratios.volume = '20 µL'
bal31.num_reactions = 3
p += f"""\
Setup {plural(bal31.num_reactions):# BAL-31 digestion/s} [1]:
{bal31}
- Incubate at 30°C for 10 min.
- Add EGTA to 30 mM
- Incubate at 65°C for 10 min.
"""
p.footnotes[1] = """\
The NEB protocol calls for 3 pmol of DNA ends.
This reaction has 1 pmol DNA, which is 2 pmol
ends. Maybe I should use less BAL-31 to