diff --git a/.DS_Store b/.DS_Store new file mode 100644 index 0000000..76f89e9 Binary files /dev/null and b/.DS_Store differ diff --git a/.gitignore b/.gitignore new file mode 100644 index 0000000..bab4bce --- /dev/null +++ b/.gitignore @@ -0,0 +1,3 @@ +*.pyc +data/pickles/* +reports/* diff --git a/FlowCollection.py b/FlowCollection.py index 096a4ad..7c14793 100644 --- a/FlowCollection.py +++ b/FlowCollection.py @@ -5,6 +5,7 @@ import pandas as pd import pdb +from decorators import timeit class FlowCollection: @@ -59,7 +60,8 @@ def plot_3D(self, xaxis, yaxis, zaxis): for metaexp in self.metaexps: metaexp.plot_3D(xaxis, yaxis, zaxis) - def gateXD(self, settings): + @timeit + def gateXD(self, settings, **kwargs): self.max_est_components = 10 for metaexp in self.metaexps: diff --git a/PipelineHelper.py b/PipelineHelper.py index 47bc37c..59d7543 100644 --- a/PipelineHelper.py +++ b/PipelineHelper.py @@ -6,8 +6,11 @@ from CompensationReport import CompensationReport from FlowCollection import FlowCollection import utility as util +from decorators import timeit import pdb import os +import datetime +import json def compensate(expt_tubes, settings, perform=True, report=True, title=""): @@ -97,7 +100,8 @@ def QC(expt_tubes, settings, perform=True, report=True): exp_uncomp = compensation['uncompensated'] return(exp_comp, exp_uncomp) -def executeXDGating(settings, save=True, load=False): +@timeit +def executeXDGating(settings, save=True, load=False, **kwargs): if not load: surface_tubes, expt_tubes = util.read_surface_tube_table(settings['TUBE_FILE']) exp_comp, exp_uncomp = QC(expt_tubes, settings, perform = True, report = True) @@ -109,10 +113,19 @@ def executeXDGating(settings, save=True, load=False): fc_list = [] for gr in groups: fc_list.append(FlowCollection(exp_comp, iter_param, gr, settings)) - + + + fc_log = {} for fc in fc_list: - fc.gateXD(settings) + fc.gateXD(settings, log_time = fc_log) #fc.plot_3D('PE-A', 'FITC-A', 'APC-A') + + # write each individual run to an output file + to_date = datetime.datetime.today().strftime('%Y%m%d') + fc_output_log_file = "FC_log_{}.txt".format(to_date) + with open(fc_output_log_file, 'a') as out_file: + out_file.write(json.dumps(fc_log)) + else: with open('pickles/controls_only/surface_tubes.pkl', 'rb') as handle: surface_tubes = pickle.load(handle) diff --git a/config/.DS_Store b/config/.DS_Store new file mode 100644 index 0000000..096bd9c Binary files /dev/null and b/config/.DS_Store differ diff --git a/config/exp_controls_only_test_config.yml b/config/exp_controls_only_test_config.yml new file mode 100644 index 0000000..04c9900 --- /dev/null +++ b/config/exp_controls_only_test_config.yml @@ -0,0 +1,8 @@ +EXP_NAME: controls_only_test +TUBE_FILE: data/exp_controls_only_test_tube_table.txt +SIGMA34: 2 +SIGMA41: 3 +THRESHOLD34: 500 +THRESHOLD41: 1000 +BASE41: fitcapc +COMPENSATION: True diff --git a/data/.DS_Store b/data/.DS_Store new file mode 100644 index 0000000..4c8cece Binary files /dev/null and b/data/.DS_Store differ diff --git a/data/exp_controls_only_test_tube_table.txt b/data/exp_controls_only_test_tube_table.txt new file mode 100644 index 0000000..03305b7 --- /dev/null +++ b/data/exp_controls_only_test_tube_table.txt @@ -0,0 +1 @@ +$DATE APC-A CB Number DAPI-A DAY EXP EXPERIMENT NAME FITC-A FSC-A FSC-H FSC-W ISOTYPE PARENT FOLDER PATH PE-A PRE-EXPANSION DAY REPLICATE SRC SSC-A TREATMENT TUBE NAME TUBE TYPE 14-Nov-15 530 CB486 325 1 Mahmud Expt #1_ 11-14-15 Day 3 Surface stain 420 180 0 0 0 Mahmud Expt #1_ 11-14-15 E7 Day 3 Surface stain /Users/jia/Dropbox/Miller/cb_exp_1/Mahmud Expt #1_ 11-14-15 E7 Day 3 Surface stain/342470.fcs 440 1 beads 200 APC BEADS 14-Nov-15 530 CB486 325 1 Mahmud Expt #1_ 11-14-15 Day 3 Surface stain 420 180 0 0 0 Mahmud Expt #1_ 11-14-15 E7 Day 3 Surface stain /Users/jia/Dropbox/Miller/cb_exp_1/Mahmud Expt #1_ 11-14-15 E7 Day 3 Surface stain/342471.fcs 440 1 beads 200 PE BEADS 14-Nov-15 530 CB486 325 1 Mahmud Expt #1_ 11-14-15 Day 3 Surface stain 420 180 0 0 0 Mahmud Expt #1_ 11-14-15 E7 Day 3 Surface stain /Users/jia/Dropbox/Miller/cb_exp_1/Mahmud Expt #1_ 11-14-15 E7 Day 3 Surface stain/342472.fcs 440 1 beads 200 FITC BEADS 21-Jan-16 530 CB490 325 2 Mahmud Expt #2_ 1-21-16 Day 0 Surface stain_001 420 180 0 0 0 Mahmud Expt #2_ 1-21-16 E5 Day 0 Surface stain_001 /Users/jia/Dropbox/Miller/cb_exp_2/Mahmud Expt #2_ 1-21-16 E5 Day 0 Surface stain_001/369459.fcs 440 1 beads 200 APC BEADS 21-Jan-16 530 CB490 325 2 Mahmud Expt #2_ 1-21-16 Day 0 Surface stain_001 420 180 0 0 0 Mahmud Expt #2_ 1-21-16 E5 Day 0 Surface stain_001 /Users/jia/Dropbox/Miller/cb_exp_2/Mahmud Expt #2_ 1-21-16 E5 Day 0 Surface stain_001/369461.fcs 440 1 beads 200 FITC BEADS 21-Jan-16 530 CB490 325 2 Mahmud Expt #2_ 1-21-16 Day 0 Surface stain_001 420 180 0 0 0 Mahmud Expt #2_ 1-21-16 E5 Day 0 Surface stain_001 /Users/jia/Dropbox/Miller/cb_exp_2/Mahmud Expt #2_ 1-21-16 E5 Day 0 Surface stain_001/369460.fcs 440 1 beads 200 PE BEADS 24-Feb-16 540 CB495 325 3 Mahmud Expt #3_VPA expanded D5_ 2-24-16 Day 0 Surface stain 420 180 0 0 0 Mahmud Expt #3_VPA expanded D5_ 2-24-16 E5 Day 0 Surface stain /Users/jia/Dropbox/Miller/cb_exp_3/Mahmud Expt #3_VPA expanded D5_ 2-24-16 E5 Day 0 Surface stain/385109.fcs 445 1 beads 200 APC BEADS 24-Feb-16 540 CB495 325 3 Mahmud Expt #3_VPA expanded D5_ 2-24-16 Day 0 Surface stain 420 180 0 0 0 Mahmud Expt #3_VPA expanded D5_ 2-24-16 E5 Day 0 Surface stain /Users/jia/Dropbox/Miller/cb_exp_3/Mahmud Expt #3_VPA expanded D5_ 2-24-16 E5 Day 0 Surface stain/385110.fcs 445 1 beads 200 PE BEADS 24-Feb-16 540 CB495 325 3 Mahmud Expt #3_VPA expanded D5_ 2-24-16 Day 0 Surface stain 420 180 0 0 0 Mahmud Expt #3_VPA expanded D5_ 2-24-16 E5 Day 0 Surface stain /Users/jia/Dropbox/Miller/cb_exp_3/Mahmud Expt #3_VPA expanded D5_ 2-24-16 E5 Day 0 Surface stain/385111.fcs 445 1 beads 200 FITC BEADS 7-Apr-16 540 CB498 325 4 Mahmud Expt #4_VPA expanded D5_ 4-7-16 Day 0 Surface stain 420 180 0 0 0 Mahmud Expt #4_VPA expanded D5_ 4-7-16 E5 Day 0 Surface stain /Users/jia/Dropbox/Miller/cb_exp_4/Mahmud Expt #4_VPA expanded D5_ 4-7-16 E5 Day 0 Surface stain/412300.fcs 480 1 beads 200 APC BEADS 7-Apr-16 540 CB498 325 4 Mahmud Expt #4_VPA expanded D5_ 4-7-16 Day 0 Surface stain 420 180 0 0 0 Mahmud Expt #4_VPA expanded D5_ 4-7-16 E5 Day 0 Surface stain /Users/jia/Dropbox/Miller/cb_exp_4/Mahmud Expt #4_VPA expanded D5_ 4-7-16 E5 Day 0 Surface stain/412301.fcs 480 1 beads 200 PE BEADS 7-Apr-16 540 CB498 325 4 Mahmud Expt #4_VPA expanded D5_ 4-7-16 Day 0 Surface stain 420 180 0 0 0 Mahmud Expt #4_VPA expanded D5_ 4-7-16 E5 Day 0 Surface stain /Users/jia/Dropbox/Miller/cb_exp_4/Mahmud Expt #4_VPA expanded D5_ 4-7-16 E5 Day 0 Surface stain/412302.fcs 480 1 beads 200 FITC BEADS 17-May-16 540 CB500 325 5 Mahmud Expt #5_VPA exp D5_5-17-16 Day 0 Surface stain 420 180 0 0 0 Mahmud Expt #5_VPA exp D5_5-17-16 E5 Day 0 Surface stain /Users/jia/Dropbox/Miller/cb_exp_5/Mahmud Expt #5_VPA exp D5_5-17-16 E5 Day 0 Surface stain/430503.fcs 425 1 beads 200 APC BEADS 17-May-16 540 CB500 325 5 Mahmud Expt #5_VPA exp D5_5-17-16 Day 0 Surface stain 420 180 0 0 0 Mahmud Expt #5_VPA exp D5_5-17-16 E5 Day 0 Surface stain /Users/jia/Dropbox/Miller/cb_exp_5/Mahmud Expt #5_VPA exp D5_5-17-16 E5 Day 0 Surface stain/430504.fcs 425 1 beads 200 PE BEADS 17-May-16 540 CB500 325 5 Mahmud Expt #5_VPA exp D5_5-17-16 Day 0 Surface stain 420 180 0 0 0 Mahmud Expt #5_VPA exp D5_5-17-16 E5 Day 0 Surface stain /Users/jia/Dropbox/Miller/cb_exp_5/Mahmud Expt #5_VPA exp D5_5-17-16 E5 Day 0 Surface stain/430505.fcs 425 1 beads 200 FITC BEADS 1-Aug-16 357 CB496 315 7 Miller CB Expt 7 E5 Day 5 420 180 0 0 0 Miller CB Expt 7 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_7/Miller CB Expt 7 E5 Day 5 E7 Day 3/478215.fcs 385 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 APC BEADS 1-Aug-16 357 CB496 315 7 Miller CB Expt 7 E5 Day 5 420 180 0 0 0 Miller CB Expt 7 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_7/Miller CB Expt 7 E5 Day 5 E7 Day 3/478216.fcs 385 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 FITC BEADS 1-Aug-16 357 CB496 315 7 Miller CB Expt 7 E5 Day 5 420 180 0 0 0 Miller CB Expt 7 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_7/Miller CB Expt 7 E5 Day 5 E7 Day 3/478217.fcs 385 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 PE BEADS 16-Jan-17 357 CB536 325 13 Miller CB Expt 13 E5 Day 5 e7 day 3 2 420 180 0 0 0 Miller CB Expt 13 E5 Day 5 E7 Day 3 - Part 2 /Users/jia/Dropbox/Miller/cb_exp_13/Miller CB Expt 13 E5 Day 5 E7 Day 3 - Part 2/60031.fcs 385 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 APC BEADS 16-Jan-17 357 CB536 325 13 Miller CB Expt 13 E5 Day 5 e7 day 3 2 420 180 0 0 0 Miller CB Expt 13 E5 Day 5 E7 Day 3 - Part 2 /Users/jia/Dropbox/Miller/cb_exp_13/Miller CB Expt 13 E5 Day 5 E7 Day 3 - Part 2/60032.fcs 385 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 FITC BEADS 16-Jan-17 357 CB536 325 13 Miller CB Expt 13 E5 Day 5 e7 day 3 2 420 180 0 0 0 Miller CB Expt 13 E5 Day 5 E7 Day 3 - Part 2 /Users/jia/Dropbox/Miller/cb_exp_13/Miller CB Expt 13 E5 Day 5 E7 Day 3 - Part 2/60033.fcs 385 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 PE BEADS 30-Jan-17 357 325 14 Miller CB Expt 14 E7 Day 9_001 420 180 0 0 0 Miller CB Expt 14 E7 Day 10 /Users/jia/Dropbox/Miller/cb_exp_14/Miller CB Expt 14 E7 Day 10/60673.fcs 385 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 APC BEADS 30-Jan-17 357 325 14 Miller CB Expt 14 E7 Day 9_001 420 180 0 0 0 Miller CB Expt 14 E7 Day 10 /Users/jia/Dropbox/Miller/cb_exp_14/Miller CB Expt 14 E7 Day 10/60674.fcs 385 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 FITC BEADS 30-Jan-17 357 325 14 Miller CB Expt 14 E7 Day 9_001 420 180 0 0 0 Miller CB Expt 14 E7 Day 10 /Users/jia/Dropbox/Miller/cb_exp_14/Miller CB Expt 14 E7 Day 10/60675.fcs 385 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 PE BEADS 21-Feb-17 357 CB542 325 15 Miller CB Expt 15 E5 Day 0 420 180 0 0 0 Miller CB Expt 15 E5 Day 0 /Users/jia/Dropbox/Miller/cb_exp_15/Miller CB Expt 15 E5 Day 0/61729.fcs 385 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 APC BEADS 21-Feb-17 357 CB543 325 15 Miller CB Expt 15 E5 Day 0 420 180 0 0 0 Miller CB Expt 15 E5 Day 0 /Users/jia/Dropbox/Miller/cb_exp_15/Miller CB Expt 15 E5 Day 0/61730.fcs 385 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 FITC BEADS 21-Feb-17 357 CB543 325 15 Miller CB Expt 15 E5 Day 0 420 180 0 0 0 Miller CB Expt 15 E5 Day 0 /Users/jia/Dropbox/Miller/cb_exp_15/Miller CB Expt 15 E5 Day 0/61731.fcs 385 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 PE BEADS 23-Apr-17 357 325 16 Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3 420 180 180 180 0 Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3/beads_apc.fcs 385 1 beads 200 APC BEADS 23-Apr-17 357 325 16 Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3 420 180 180 180 0 Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3/beads_fitc.fcs 385 1 beads 200 FITC BEADS 23-Apr-17 357 325 16 Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3 420 180 180 180 0 Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3/beads_pe.fcs 385 1 beads 200 PE BEADS 20-Nov-15 530 CB486 325 0 1 Mahmud Expt #1_ 11-20-15 Day 9 Surface stain 420 180 0 0 0 Mahmud Expt #1_ 11-20-15 E7 Day 9 Surface stain /Users/jia/Dropbox/Miller/cb_exp_1/Mahmud Expt #1_ 11-20-15 E7 Day 9 Surface stain/345746.fcs 440 E7 1 Mahmud lab samples 200 TPO + SCF VPA presort SURFACE 22-Nov-15 530 CB486 325 3 1 Mahmud Expt #1_ 11-22-15 Day 11 Surface stain 420 180 0 0 0 Mahmud Expt #1_ 11-22-15 E7 Day 11 Surface stain /Users/jia/Dropbox/Miller/cb_exp_1/Mahmud Expt #1_ 11-22-15 E7 Day 11 Surface stain/346042.fcs 440 E7 1 Mahmud lab samples 200 TPO + SCF VPA presort SURFACE 24-Nov-15 530 CB486 325 5 1 Mahmud Expt #1_ 11-24-15 Day 13 Surface stain 420 180 0 0 0 Mahmud Expt #1_ 11-24-15 E7 Day 13 Surface stain /Users/jia/Dropbox/Miller/cb_exp_1/Mahmud Expt #1_ 11-24-15 E7 Day 13 Surface stain/347610.fcs 440 E7 1 Mahmud lab samples 200 TPO + SCF VPA presort SURFACE 28-Nov-15 530 CB486 325 7 1 Mahmud Expt #1_ 11-28-15 Day 17 Surface stain 420 180 0 0 0 Mahmud Expt #1_ 11-28-15 E7 Day 17 Surface stain /Users/jia/Dropbox/Miller/cb_exp_1/Mahmud Expt #1_ 11-28-15 E7 Day 17 Surface stain/351577.fcs 440 E7 1 Mahmud lab samples 200 TPO + SCF VPA presort SURFACE 27-Jan-16 530 CB490 325 0 2 Mahmud Expt #2_ 1-27-16 Day 6 Surface stain 420 180 0 0 0 Mahmud Expt #2_ 1-27-16 E5 Day 6 Surface stain /Users/jia/Dropbox/Miller/cb_exp_2/Mahmud Expt #2_ 1-27-16 E5 Day 6 Surface stain/372249.fcs 440 E5 1 Expanded cells_VPA 200 Control sample SURFACE 31-Jan-16 530 CB490 325 5 2 Mahmud Expt #2_ 1-31-16 Day 10 Surface stain 420 180 0 0 0 Mahmud Expt #2_ 1-31-16 E5 Day 10 Surface stain /Users/jia/Dropbox/Miller/cb_exp_2/Mahmud Expt #2_ 1-31-16 E5 Day 10 Surface stain/375054.fcs 440 E5 1 Expanded cells_VPA 200 Control sample SURFACE 2-Feb-16 530 CB490 325 7 2 Mahmud Expt #2_ 2-2-16 Day 12 Surface stain 420 180 0 0 0 Mahmud Expt #2_ 2-2-16 E5 Day 12 Surface stain /Users/jia/Dropbox/Miller/cb_exp_2/Mahmud Expt #2_ 2-2-16 E5 Day 12 Surface stain/376759.fcs 440 E5 1 Expanded cells_VPA 200 Control sample SURFACE 24-Feb-16 540 CB495 325 0 3 Mahmud Expt #3_VPA expanded D5_ 2-24-16 Day 0 Surface stain 420 180 0 0 0 Mahmud Expt #3_VPA expanded D5_ 2-24-16 E5 Day 0 Surface stain /Users/jia/Dropbox/Miller/cb_exp_3/Mahmud Expt #3_VPA expanded D5_ 2-24-16 E5 Day 0 Surface stain/385119.fcs 445 E5 1 Presort 200 Presort Control sample SURFACE 27-Feb-16 540 CB495 325 3 3 Mahmud Expt #3_VPA expanded D5_ 2-24-16 Day 3 Surface stain 420 180 0 0 0 Mahmud Expt #3_VPA expanded D5_ 2-27-16 E5 Day 3 Surface stain /Users/jia/Dropbox/Miller/cb_exp_3/Mahmud Expt #3_VPA expanded D5_ 2-27-16 E5 Day 3 Surface stain/388002.fcs 445 E5 1 Presort 200 Presort Control Miller cytokines SURFACE 29-Feb-16 540 CB495 325 5 3 Mahmud Expt #3_VPA expanded D5_ 2-29-16 Day 5 Surface stain 420 180 0 0 0 Mahmud Expt #3_VPA expanded D5_ 2-29-16 E5 Day 5 Surface stain /Users/jia/Dropbox/Miller/cb_exp_3/Mahmud Expt #3_VPA expanded D5_ 2-29-16 E5 Day 5 Surface stain/388255.fcs 445 E5 1 Presort 200 Presort Control Miller cytokines SURFACE 2-Mar-16 540 CB495 325 7 3 Mahmud Expt #3_VPA expanded D5_ 3-2-16 Day 7 Surface stain 420 180 0 0 0 Mahmud Expt #3_VPA expanded D5_ 3-2-16 E5 Day 7 Surface stain /Users/jia/Dropbox/Miller/cb_exp_3/Mahmud Expt #3_VPA expanded D5_ 3-2-16 E5 Day 7 Surface stain/389325.fcs 445 E5 1 Presort cells 200 Presort Control Control Cytokines SURFACE 27-Jul-16 357 CB496 325 0 7 Miller CB Expt 420 180 0 0 0 Miller CB Expt 7 E5 Day 0 /Users/jia/Dropbox/Miller/cb_exp_7/Miller CB Expt 7 E5 Day 0/475771.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC 200 Control sample SURFACE 30-Jul-16 357 CB496 315 3 7 Miller CB Expt 7 E5 Day 3 420 180 0 0 0 Miller CB Expt 7 E5 Day 3 /Users/jia/Dropbox/Miller/cb_exp_7/Miller CB Expt 7 E5 Day 3/476831.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 - Control - Day 3 SURFACE 1-Aug-16 357 CB496 315 5 7 Miller CB Expt 7 E5 Day 5 420 180 0 0 0 Miller CB Expt 7 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_7/Miller CB Expt 7 E5 Day 5 E7 Day 3/478214.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 - Control - Day 5 SURFACE 5-Aug-16 357 CB496 315 7 7 Miller CB Expt 7 E5 Day 8 E7 Day 6 420 180 0 0 0 Miller CB Expt 7 E5 Day 8 E7 Day 6 /Users/jia/Dropbox/Miller/cb_exp_7/Miller CB Expt 7 E5 Day 8 E7 Day 6/481191.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 - Control - Day 5_001 SURFACE 7-Apr-16 540 CB498 325 0 4 Mahmud Expt #4_VPA expanded D5_ 4-7-16 Day 0 Surface stain 420 180 0 0 0 Mahmud Expt #4_VPA expanded D5_ 4-7-16 E5 Day 0 Surface stain /Users/jia/Dropbox/Miller/cb_exp_4/Mahmud Expt #4_VPA expanded D5_ 4-7-16 E5 Day 0 Surface stain/412303.fcs 480 E5 1 Presort 200 #498 Presort sample_498 SURFACE 10-Apr-16 540 CB498 325 3 4 Mahmud Expt #4_VPA expanded D5_ 4-10-16 Day 3 Surface stain 420 180 0 0 0 Mahmud Expt #4_VPA expanded D5_ 4-10-16 E5 Day 3 Surface stain /Users/jia/Dropbox/Miller/cb_exp_4/Mahmud Expt #4_VPA expanded D5_ 4-10-16 E5 Day 3 Surface stain/413849.fcs 480 E5 1 Miller lab cytokines 200 #498 Presort A SURFACE 12-Apr-16 540 CB498 325 5 4 Mahmud Expt #4_VPA expanded D5_ 4-12-16 Day 5 Surface stain 420 180 0 0 0 Mahmud Expt #4_VPA expanded D5_ 4-12-16 E5 Day 5 Surface stain /Users/jia/Dropbox/Miller/cb_exp_4/Mahmud Expt #4_VPA expanded D5_ 4-12-16 E5 Day 5 Surface stain/415085.fcs 480 E5 1 Miller lab cytokines 200 #498 Presort A SURFACE 14-Apr-16 540 CB498 325 7 4 Mahmud Expt #4_VPA expanded D5_ 4-14-16 Day 7 Surface stain 420 180 0 0 0 Mahmud Expt #4_VPA expanded D5_ 4-14-16 E5 Day 7 Surface stain /Users/jia/Dropbox/Miller/cb_exp_4/Mahmud Expt #4_VPA expanded D5_ 4-14-16 E5 Day 7 Surface stain/415789.fcs 480 E5 1 Miller lab cytokines 200 #498 Presort A SURFACE 7-Apr-16 540 CB499 325 0 4 Mahmud Expt #4_VPA expanded D5_ 4-7-16 Day 0 Surface stain 420 180 0 0 0 Mahmud Expt #4_VPA expanded D5_ 4-7-16 E5 Day 0 Surface stain /Users/jia/Dropbox/Miller/cb_exp_4/Mahmud Expt #4_VPA expanded D5_ 4-7-16 E5 Day 0 Surface stain/412315.fcs 480 E5 1 Presort 200 #499 Presort sample_499 SURFACE 10-Apr-16 540 CB499 325 3 4 Mahmud Expt #4_VPA expanded D5_ 4-10-16 Day 3 Surface stain 420 180 0 0 0 Mahmud Expt #4_VPA expanded D5_ 4-10-16 E5 Day 3 Surface stain /Users/jia/Dropbox/Miller/cb_exp_4/Mahmud Expt #4_VPA expanded D5_ 4-10-16 E5 Day 3 Surface stain/413851.fcs 480 E5 1 Miller lab cytokines 200 #499 Presort C SURFACE 12-Apr-16 540 CB499 325 5 4 Mahmud Expt #4_VPA expanded D5_ 4-12-16 Day 5 Surface stain 420 180 0 0 0 Mahmud Expt #4_VPA expanded D5_ 4-12-16 E5 Day 5 Surface stain /Users/jia/Dropbox/Miller/cb_exp_4/Mahmud Expt #4_VPA expanded D5_ 4-12-16 E5 Day 5 Surface stain/415087.fcs 480 E5 1 Miller lab cytokines 200 #499 Presort C SURFACE 14-Apr-16 540 CB499 325 7 4 Mahmud Expt #4_VPA expanded D5_ 4-14-16 Day 7 Surface stain 420 180 0 0 0 Mahmud Expt #4_VPA expanded D5_ 4-14-16 E5 Day 7 Surface stain /Users/jia/Dropbox/Miller/cb_exp_4/Mahmud Expt #4_VPA expanded D5_ 4-14-16 E5 Day 7 Surface stain/415791.fcs 480 E5 1 Miller lab cytokines 200 #499 Presort C SURFACE 17-May-16 540 CB500 325 0 5 Mahmud Expt #5_VPA exp D5_5-17-16 Day 0 Surface stain 420 180 0 0 0 Mahmud Expt #5_VPA exp D5_5-17-16 E5 Day 0 Surface stain /Users/jia/Dropbox/Miller/cb_exp_5/Mahmud Expt #5_VPA exp D5_5-17-16 E5 Day 0 Surface stain/430506.fcs 425 E5 1 whole culture 200 #500 Control CB #500 SURFACE 20-May-16 540 CB500 325 3 5 Mahmud Expt #5_VPA exp D5_5-20-16 Day 3 Surface stain 420 180 0 0 0 Mahmud Expt #5_VPA exp D5_5-20-16 E5 Day 3 Surface stain /Users/jia/Dropbox/Miller/cb_exp_5/Mahmud Expt #5_VPA exp D5_5-20-16 E5 Day 3 Surface stain/435404.fcs 425 E5 1 whole culture 200 #500 Control CB #500 SURFACE 22-May-16 540 CB500 325 5 5 Mahmud Expt #5_VPA exp D5_5-22-16 Day 5 Surface stain 420 180 0 0 0 Mahmud Expt #5_VPA exp D5_5-22-16 E5 Day 5 Surface stain /Users/jia/Dropbox/Miller/cb_exp_5/Mahmud Expt #5_VPA exp D5_5-22-16 E5 Day 5 Surface stain/438850.fcs 425 E5 1 whole culture 200 #500 Control CB #500 SURFACE 24-May-16 540 CB500 325 7 5 Mahmud Expt #5_VPA exp D5_5-24-16 Day 7 Surface stain 420 180 0 0 0 Mahmud Expt #5_VPA exp D5_5-24-16 E5 Day 7 Surface stain /Users/jia/Dropbox/Miller/cb_exp_5/Mahmud Expt #5_VPA exp D5_5-24-16 E5 Day 7 Surface stain/440177.fcs 425 E5 1 Miller cytokines 200 #500 Control CB #500 SURFACE 17-May-16 540 CB501 325 0 5 Mahmud Expt #5_VPA exp D5_5-17-16 Day 0 Surface stain 420 180 0 0 0 Mahmud Expt #5_VPA exp D5_5-17-16 E5 Day 0 Surface stain /Users/jia/Dropbox/Miller/cb_exp_5/Mahmud Expt #5_VPA exp D5_5-17-16 E5 Day 0 Surface stain/430507.fcs 425 E5 1 whole culture 200 #501 Control CB #501 SURFACE 20-May-16 540 CB501 325 3 5 Mahmud Expt #5_VPA exp D5_5-20-16 Day 3 Surface stain 420 180 0 0 0 Mahmud Expt #5_VPA exp D5_5-20-16 E5 Day 3 Surface stain /Users/jia/Dropbox/Miller/cb_exp_5/Mahmud Expt #5_VPA exp D5_5-20-16 E5 Day 3 Surface stain/435405.fcs 425 E5 1 whole culture 200 #501 Control CB #501 SURFACE 22-May-16 540 CB501 325 5 5 Mahmud Expt #5_VPA exp D5_5-22-16 Day 5 Surface stain 420 180 0 0 0 Mahmud Expt #5_VPA exp D5_5-22-16 E5 Day 5 Surface stain /Users/jia/Dropbox/Miller/cb_exp_5/Mahmud Expt #5_VPA exp D5_5-22-16 E5 Day 5 Surface stain/438851.fcs 425 E5 1 whole culture 200 #501 Control CB #501 SURFACE 24-May-16 540 CB501 325 7 5 Mahmud Expt #5_VPA exp D5_5-24-16 Day 7 Surface stain 420 180 0 0 0 Mahmud Expt #5_VPA exp D5_5-24-16 E5 Day 7 Surface stain /Users/jia/Dropbox/Miller/cb_exp_5/Mahmud Expt #5_VPA exp D5_5-24-16 E5 Day 7 Surface stain/440178.fcs 425 E5 1 Miller cytokines 200 #501 Control CB #501 SURFACE 19-May-16 540 CB500 325 0 5 Mahmud Expt #5_D7 VPA exp_5-19-16 Day 0 Surface stain 420 180 0 0 0 Mahmud Expt #5_D7 VPA exp_5-19-16 E7 Day 0 Surface stain /Users/jia/Dropbox/Miller/cb_exp_5/Mahmud Expt #5_D7 VPA exp_5-19-16 E7 Day 0 Surface stain/433473.fcs 425 E7 1 whole culture 200 #500 Control CB #500 SURFACE 22-May-16 540 CB500 325 3 5 Mahmud Expt #5_D7 VPA exp_5-22-16 Day 3 Surface stain 420 180 0 0 0 Mahmud Expt #5_D7 VPA exp_5-22-16 E7 Day 3 Surface stain /Users/jia/Dropbox/Miller/cb_exp_5/Mahmud Expt #5_D7 VPA exp_5-22-16 E7 Day 3 Surface stain/438890.fcs 425 E7 1 whole culture 200 #500 Control CB #500 SURFACE 24-May-16 540 CB500 325 5 5 Mahmud Expt #5_D7 VPA exp_5-24-16 Day 5 Surface stain 420 180 0 0 0 Mahmud Expt #5_D7 VPA exp_5-24-16 E7 Day 5 Surface stain /Users/jia/Dropbox/Miller/cb_exp_5/Mahmud Expt #5_D7 VPA exp_5-24-16 E7 Day 5 Surface stain/440224.fcs 425 E7 1 whole culture 200 #500 Control CB #500 SURFACE 26-May-16 540 CB500 325 7 5 Mahmud Expt #5_D7 VPA exp_5-26-16 Day 7 Surface stain 420 180 0 0 0 Mahmud Expt #5_D7 VPA exp_5-26-16 E7 Day 7 Surface stain /Users/jia/Dropbox/Miller/cb_exp_5/Mahmud Expt #5_D7 VPA exp_5-26-16 E7 Day 7 Surface stain/444085.fcs 425 E7 1 Miller cytokines 200 #500 Control CB #500 SURFACE 19-May-16 540 CB501 325 0 5 Mahmud Expt #5_D7 VPA exp_5-19-16 Day 0 Surface stain 420 180 0 0 0 Mahmud Expt #5_D7 VPA exp_5-19-16 E7 Day 0 Surface stain /Users/jia/Dropbox/Miller/cb_exp_5/Mahmud Expt #5_D7 VPA exp_5-19-16 E7 Day 0 Surface stain/433474.fcs 425 E7 1 whole culture 200 #501 Control CB #501 SURFACE 22-May-16 540 CB501 325 3 5 Mahmud Expt #5_D7 VPA exp_5-22-16 Day 3 Surface stain 420 180 0 0 0 Mahmud Expt #5_D7 VPA exp_5-22-16 E7 Day 3 Surface stain /Users/jia/Dropbox/Miller/cb_exp_5/Mahmud Expt #5_D7 VPA exp_5-22-16 E7 Day 3 Surface stain/438891.fcs 425 E7 1 whole culture 200 #501 Control CB #501 SURFACE 24-May-16 540 CB501 325 5 5 Mahmud Expt #5_D7 VPA exp_5-24-16 Day 5 Surface stain 420 180 0 0 0 Mahmud Expt #5_D7 VPA exp_5-24-16 E7 Day 5 Surface stain /Users/jia/Dropbox/Miller/cb_exp_5/Mahmud Expt #5_D7 VPA exp_5-24-16 E7 Day 5 Surface stain/440225.fcs 425 E7 1 whole culture 200 #501 Control CB #501 SURFACE 26-May-16 540 CB501 325 7 5 Mahmud Expt #5_D7 VPA exp_5-26-16 Day 7 Surface stain 420 180 0 0 0 Mahmud Expt #5_D7 VPA exp_5-26-16 E7 Day 7 Surface stain /Users/jia/Dropbox/Miller/cb_exp_5/Mahmud Expt #5_D7 VPA exp_5-26-16 E7 Day 7 Surface stain/444086.fcs 425 E7 1 Miller cytokines 200 #501 Control CB #501 SURFACE 29-Jul-16 357 CB496 325 0 7 Miller CB Expt 7 E7 Day 0 420 180 0 0 0 Miller CB Expt 7 E7 Day 0 /Users/jia/Dropbox/Miller/cb_exp_7/Miller CB Expt 7 E7 Day 0/476798.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 day 0 SURFACE 1-Aug-16 357 CB496 315 3 7 Miller CB Expt 7 E5 Day 5 420 180 0 0 0 Miller CB Expt 7 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_7/Miller CB Expt 7 E5 Day 5 E7 Day 3/478236.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 - Control - Day 3 SURFACE 5-Aug-16 357 CB496 315 5 7 Miller CB Expt 7 E5 Day 8 E7 Day 6 420 180 0 0 0 Miller CB Expt 7 E5 Day 8 E7 Day 6 /Users/jia/Dropbox/Miller/cb_exp_7/Miller CB Expt 7 E5 Day 8 E7 Day 6/481197.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 - Control - Day 3_001 SURFACE 5-Aug-16 357 CB496 315 7 7 Miller CB Expt 7 E5 Day 9 E7 Day 7 420 180 0 0 0 Miller CB Expt 7 E5 Day 9 E7 Day 7 /Users/jia/Dropbox/Miller/cb_exp_7/Miller CB Expt 7 E5 Day 9 E7 Day 7/482472.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 - Control - Day 3_002 SURFACE 11-Jan-17 357 CB536 325 0 13 Miller CB Expt 13 E5 Day 0 420 180 0 0 0 Miller CB Expt 13 E5 Day 0 E7 Day 0 /Users/jia/Dropbox/Miller/cb_exp_13/Miller CB Expt 13 E5 Day 0 E7 Day 0/59812.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 CB536 Control Day 0 SURFACE 11-Jan-17 357 CB537 325 0 13 Miller CB Expt 13 E5 Day 0 420 180 0 0 0 Miller CB Expt 13 E5 Day 0 E7 Day 0 /Users/jia/Dropbox/Miller/cb_exp_13/Miller CB Expt 13 E5 Day 0 E7 Day 0/59816.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 CB537 Control Day 0 SURFACE 14-Jan-17 357 CB536 325 3 13 Miller CB Expt 13 E5 Day 3 420 180 0 0 0 Miller CB Expt 13 E5 Day 3 /Users/jia/Dropbox/Miller/cb_exp_13/Miller CB Expt 13 E5 Day 3/59978.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 CB536 Control Day 3 SURFACE 14-Jan-17 357 CB537 325 3 13 Miller CB Expt 13 E5 Day 3 420 180 0 0 0 Miller CB Expt 13 E5 Day 3 /Users/jia/Dropbox/Miller/cb_exp_13/Miller CB Expt 13 E5 Day 3/59982.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 CB537 Control Day 3 SURFACE 16-Jan-17 357 CB536 325 5 13 Miller CB Expt 13 E5 Day 5 e7 day 3 2 420 180 0 0 0 Miller CB Expt 13 E5 Day 5 E7 Day 3 - Part 2 /Users/jia/Dropbox/Miller/cb_exp_13/Miller CB Expt 13 E5 Day 5 E7 Day 3 - Part 2/60030.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 CB536 Control Day 5 SURFACE 16-Jan-17 357 CB537 325 5 13 Miller CB Expt 13 E5 Day 5 e7 day 3 2 420 180 0 0 0 Miller CB Expt 13 E5 Day 5 E7 Day 3 - Part 2 /Users/jia/Dropbox/Miller/cb_exp_13/Miller CB Expt 13 E5 Day 5 E7 Day 3 - Part 2/60034.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 CB537 Control Day 5 SURFACE 18-Jan-17 357 CB536 325 7 13 Miller CB Expt 13 E5 Day 7 E7 Day 5 420 180 0 0 0 Miller CB Expt 13 E5 Day 7 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_13/Miller CB Expt 13 E5 Day 7 E7 Day 5/60060.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 CB536 Control Day 7 SURFACE 18-Jan-17 357 CB537 325 7 13 Miller CB Expt 13 E5 Day 7 E7 Day 5 420 180 0 0 0 Miller CB Expt 13 E5 Day 7 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_13/Miller CB Expt 13 E5 Day 7 E7 Day 5/60064.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 CB537 Control Day 7 SURFACE 13-Jan-17 357 CB536 325 0 13 Miller CB Expt 13 E7 Day 0_001 420 180 0 0 0 Miller CB Expt 13 E7 Day 0 /Users/jia/Dropbox/Miller/cb_exp_13/Miller CB Expt 13 E7 Day 0/60188.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 CB536 Control Day 0 SURFACE 16-Jan-17 357 CB536 325 3 13 Miller CB Expt 13 E5 Day 5 e7 day 3 2 420 180 0 0 0 Miller CB Expt 13 E5 Day 5 E7 Day 3 - Part 2 /Users/jia/Dropbox/Miller/cb_exp_13/Miller CB Expt 13 E5 Day 5 E7 Day 3 - Part 2/60035.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 CB536 Control Day 3 SURFACE 18-Jan-17 357 CB536 325 5 13 Miller CB Expt 13 E5 Day 7 E7 Day 5 420 180 0 0 0 Miller CB Expt 13 E5 Day 7 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_13/Miller CB Expt 13 E5 Day 7 E7 Day 5/60065.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 536 Control Day 5 SURFACE 20-Jan-17 357 CB536 325 7 13 Miller CB Expt 13 E5 Day 9 E7 Day 7 420 180 0 0 0 Miller CB Expt 13 E5 Day 9 E7 Day 7 /Users/jia/Dropbox/Miller/cb_exp_13/Miller CB Expt 13 E5 Day 9 E7 Day 7/60118.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 CB536 Control Day 7 SURFACE 13-Jan-17 357 CB537 325 0 13 Miller CB Expt 13 E7 Day 0_001 420 180 0 0 0 Miller CB Expt 13 E7 Day 0 /Users/jia/Dropbox/Miller/cb_exp_13/Miller CB Expt 13 E7 Day 0/60192.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 CB537 Control Day 0 SURFACE 16-Jan-17 357 CB537 325 3 13 Miller CB Expt 13 E5 Day 5 e7 day 3 2 420 180 0 0 0 Miller CB Expt 13 E5 Day 5 E7 Day 3 - Part 2 /Users/jia/Dropbox/Miller/cb_exp_13/Miller CB Expt 13 E5 Day 5 E7 Day 3 - Part 2/60036.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 CB537 Control Day 3 SURFACE 18-Jan-17 357 CB537 325 5 13 Miller CB Expt 13 E5 Day 7 E7 Day 5 420 180 0 0 0 Miller CB Expt 13 E5 Day 7 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_13/Miller CB Expt 13 E5 Day 7 E7 Day 5/60066.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 CB537 Control Day 7 SURFACE 20-Jan-17 357 CB537 325 7 13 Miller CB Expt 13 E5 Day 9 E7 Day 7 420 180 0 0 0 Miller CB Expt 13 E5 Day 9 E7 Day 7 /Users/jia/Dropbox/Miller/cb_exp_13/Miller CB Expt 13 E5 Day 9 E7 Day 7/60119.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 CB537 Control Day 7 SURFACE 20-Jan-17 357 CB539A 325 0 14 Miller CB Expt 14 E7 Day 0 420 180 0 0 0 Miller CB Expt 14 E7 Day 0 /Users/jia/Dropbox/Miller/cb_exp_14/Miller CB Expt 14 E7 Day 0/60428.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 CB539 Control Day 0 SURFACE 23-Jan-17 357 CB539A 325 3 14 Miller CB Expt 13 E5 Day 11 E7 Day 9_001 420 180 0 0 0 Miller CB Expt 14 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_14/Miller CB Expt 14 E7 Day 3/60142.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 539 control D3 SURFACE 25-Jan-17 357 CB539A 325 5 14 Miller CB Expt 13 E5 DayE72 D3 E7 Day 9_002 420 180 0 0 0 Miller CB Expt 14 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_14/Miller CB Expt 14 E7 Day 5/61079.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 539 control D5 SURFACE 27-Jan-17 357 CB539A 325 7 14 Miller CB Expt 14 E7 Day 7 420 180 0 0 0 Miller CB Expt 14 E7 Day 7 /Users/jia/Dropbox/Miller/cb_exp_14/Miller CB Expt 14 E7 Day 7/60210.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 CB539 Control Day 7 SURFACE 20-Jan-17 357 CB539B 325 0 14 Miller CB Expt 14 E7 Day 0 420 180 0 0 0 Miller CB Expt 14 E7 Day 0 /Users/jia/Dropbox/Miller/cb_exp_14/Miller CB Expt 14 E7 Day 0/60433.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Low CO2 E5 CB539 Low CO2 Day 0 SURFACE 23-Jan-17 357 CB539B 325 3 14 Miller CB Expt 13 E5 Day 11 E7 Day 9_001 420 180 0 0 0 Miller CB Expt 14 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_14/Miller CB Expt 14 E7 Day 3/60154.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Low CO2 E7 539 co2 D3 SURFACE 25-Jan-17 357 CB539B 325 5 14 Miller CB Expt 13 E5 DayE72 D3 E7 Day 9_002 420 180 0 0 0 Miller CB Expt 14 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_14/Miller CB Expt 14 E7 Day 5/61087.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Low CO2 E7 539 co2 D5 SURFACE 27-Jan-17 357 CB539B 325 7 14 Miller CB Expt 14 E7 Day 7 420 180 0 0 0 Miller CB Expt 14 E7 Day 7 /Users/jia/Dropbox/Miller/cb_exp_14/Miller CB Expt 14 E7 Day 7/60215.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Low CO2 E5 CB539 Low CO2 Day 7 SURFACE 20-Jan-17 357 CB540A 325 0 14 Miller CB Expt 14 E7 Day 0 420 180 0 0 0 Miller CB Expt 14 E7 Day 0 /Users/jia/Dropbox/Miller/cb_exp_14/Miller CB Expt 14 E7 Day 0/60432.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 CB540 Control Day 0 SURFACE 23-Jan-17 357 CB540A 325 3 14 Miller CB Expt 13 E5 Day 11 E7 Day 9_001 420 180 0 0 0 Miller CB Expt 14 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_14/Miller CB Expt 14 E7 Day 3/60155.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 540 control D3 SURFACE 25-Jan-17 357 CB540A 325 5 14 Miller CB Expt 13 E5 DayE72 D3 E7 Day 9_002 420 180 0 0 0 Miller CB Expt 14 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_14/Miller CB Expt 14 E7 Day 5/61088.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 540 control D5 SURFACE 27-Jan-17 357 CB540A 325 7 14 Miller CB Expt 14 E7 Day 7 420 180 0 0 0 Miller CB Expt 14 E7 Day 7 /Users/jia/Dropbox/Miller/cb_exp_14/Miller CB Expt 14 E7 Day 7/60214.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 CB540 Control Day 7 SURFACE 20-Jan-17 357 CB540B 325 0 14 Miller CB Expt 14 E7 Day 0 420 180 0 0 0 Miller CB Expt 14 E7 Day 0 /Users/jia/Dropbox/Miller/cb_exp_14/Miller CB Expt 14 E7 Day 0/60434.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Low CO2 E5 CB540 Low CO2l Day 0 SURFACE 23-Jan-17 357 CB540B 325 3 14 Miller CB Expt 13 E5 Day 11 E7 Day 9_001 420 180 0 0 0 Miller CB Expt 14 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_14/Miller CB Expt 14 E7 Day 3/60156.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Low CO2 E7 540 co2 D3 SURFACE 25-Jan-17 357 CB540B 325 5 14 Miller CB Expt 13 E5 DayE72 D3 E7 Day 9_002 420 180 0 0 0 Miller CB Expt 14 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_14/Miller CB Expt 14 E7 Day 5/61089.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Low CO2 E7 540 co2 D5 SURFACE 27-Jan-17 357 CB540B 325 7 14 Miller CB Expt 14 E7 Day 7 420 180 0 0 0 Miller CB Expt 14 E7 Day 7 /Users/jia/Dropbox/Miller/cb_exp_14/Miller CB Expt 14 E7 Day 7/60216.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Low CO2 E5 CB540 Low CO2 Day 7 SURFACE 21-Feb-17 357 CB542 325 0 15 Miller CB Expt 15 E5 Day 0 420 180 0 0 0 Miller CB Expt 15 E5 Day 0 /Users/jia/Dropbox/Miller/cb_exp_15/Miller CB Expt 15 E5 Day 0/61728.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 CB542 Control Day 0 SURFACE 21-Feb-17 357 CB543 325 0 15 Miller CB Expt 15 E5 Day 0 420 180 0 0 0 Miller CB Expt 15 E5 Day 0 /Users/jia/Dropbox/Miller/cb_exp_15/Miller CB Expt 15 E5 Day 0/61732.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 CB543 Control Day 0 SURFACE 24-Feb-17 357 CB542 325 3 15 Miller CB Expt 15 E5 Day3 420 180 0 0 0 Miller CB Expt 15 E5 Day 3 /Users/jia/Dropbox/Miller/cb_exp_15/Miller CB Expt 15 E5 Day 3/61868.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 CB542 Control Day 3 SURFACE 24-Feb-17 357 CB543 325 3 15 Miller CB Expt 15 E5 Day3 420 180 0 0 0 Miller CB Expt 15 E5 Day 3 /Users/jia/Dropbox/Miller/cb_exp_15/Miller CB Expt 15 E5 Day 3/61872.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 CB543 Control Day 3 SURFACE 26-Feb-17 357 CB542 325 5 15 Miller CB Expt 15 E5 Day 5 E7 Day 3 420 180 0 0 0 Miller CB Expt 15 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_15/Miller CB Expt 15 E5 Day 5 E7 Day 3/61894.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 CB542 Control Day 5 SURFACE 26-Feb-17 357 CB543 325 5 15 Miller CB Expt 15 E5 Day 5 E7 Day 3 420 180 0 0 0 Miller CB Expt 15 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_15/Miller CB Expt 15 E5 Day 5 E7 Day 3/61898.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 CB543 Control Day 5 SURFACE 28-Feb-17 357 CB542 325 7 15 Miller CB Expt 15 E5 Day 7 E7 Day 5 420 180 0 0 0 Miller CB Expt 15 E5 Day 7 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_15/Miller CB Expt 15 E5 Day 7 E7 Day 5/61924.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 CB542 Control Day 7 SURFACE 28-Feb-17 357 CB543 325 7 15 Miller CB Expt 15 E5 Day 7 E7 Day 5 420 180 0 0 0 Miller CB Expt 15 E5 Day 7 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_15/Miller CB Expt 15 E5 Day 7 E7 Day 5/61928.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E5 CB543 Control Day 7 SURFACE 23-Feb-17 357 CB542 325 0 15 Miller CB Expt 15 E7 Day 0 420 180 0 0 0 Miller CB Expt 15 E7 Day 0 /Users/jia/Dropbox/Miller/cb_exp_15/Miller CB Expt 15 E7 Day 0/62032.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 CB542 Control Day 0 SURFACE 26-Feb-17 357 CB542 325 3 15 Miller CB Expt 15 E5 Day 5 E7 Day 3 420 180 0 0 0 Miller CB Expt 15 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_15/Miller CB Expt 15 E5 Day 5 E7 Day 3/61899.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 CB542 Control Day 3 SURFACE 28-Feb-17 357 CB542 325 5 15 Miller CB Expt 15 E5 Day 7 E7 Day 5 420 180 0 0 0 Miller CB Expt 15 E5 Day 7 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_15/Miller CB Expt 15 E5 Day 7 E7 Day 5/61929.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 CB542 Control Day 5 SURFACE 2-Mar-17 357 CB542 325 7 15 Miller CB Expt 15 E5 Day 9 E7 Day 7 420 180 0 0 0 Miller CB Expt 15 E5 Day 9 E7 Day 7 /Users/jia/Dropbox/Miller/cb_exp_15/Miller CB Expt 15 E5 Day 9 E7 Day 7/61991.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 CB542 Control Day 7 SURFACE 23-Feb-17 357 CB543 325 0 15 Miller CB Expt 15 E7 Day 0 420 180 0 0 0 Miller CB Expt 15 E7 Day 0 /Users/jia/Dropbox/Miller/cb_exp_15/Miller CB Expt 15 E7 Day 0/62036.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 CB543 Control Day 0 SURFACE 26-Feb-17 357 CB543 325 3 15 Miller CB Expt 15 E5 Day 5 E7 Day 3 420 180 0 0 0 Miller CB Expt 15 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_15/Miller CB Expt 15 E5 Day 5 E7 Day 3/61900.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 CB543 Control Day 3 SURFACE 28-Feb-17 357 CB543 325 5 15 Miller CB Expt 15 E5 Day 7 E7 Day 5 420 180 0 0 0 Miller CB Expt 15 E5 Day 7 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_15/Miller CB Expt 15 E5 Day 7 E7 Day 5/61930.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 CB543 Control Day 5 SURFACE 2-Mar-17 357 CB543 325 7 15 Miller CB Expt 15 E5 Day 9 E7 Day 7 420 180 0 0 0 Miller CB Expt 15 E5 Day 9 E7 Day 7 /Users/jia/Dropbox/Miller/cb_exp_15/Miller CB Expt 15 E5 Day 9 E7 Day 7/61992.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 Control E7 CB543 Control Day 7 SURFACE 18-Apr-17 357 CB544 325 0 16 Miller CB Expt 16 E5 Day 0 420 180 180 180 0 Miller CB Expt 16 E5 Day 0 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E5 Day 0/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB544 VPA+ Day 0.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB544 VPA Day 0 SURFACE 21-Apr-17 357 CB544 325 3 16 Miller CB Expt 16 E0 Day 9 E5 Day 3 420 180 180 180 0 Miller CB Expt 16 E0 Day 9 E5 Day 3 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E0 Day 9 E5 Day 3/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB544 VPA+ Day 3.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB544 VPA Day 3 SURFACE 23-Apr-17 357 CB544 325 5 16 Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3 420 180 180 180 0 Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB544 VPA+ Day 5.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB544 VPA Day 5 SURFACE 25-Apr-17 357 CB544 325 7 16 Miller CB Expt 16 E0 PL Day 13 E5 Day 7 E7 Day 5 420 180 180 180 0 Miller CB Expt 16 E5 Day 7 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E5 Day 7 E7 Day 5/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB544 VPA+ Day 7.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB544 VPA Day 7 SURFACE 18-Apr-17 357 CB546 325 0 16 Miller CB Expt 16 E5 Day 0 420 180 180 180 0 Miller CB Expt 16 E5 Day 0 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E5 Day 0/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB546 VPA+ Day 0.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB546 VPA Day 0 SURFACE 21-Apr-17 357 CB546 325 3 16 Miller CB Expt 16 E0 Day 9 E5 Day 3 420 180 180 180 0 Miller CB Expt 16 E0 Day 9 E5 Day 3 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E0 Day 9 E5 Day 3/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB546 VPA+ Day 3.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB546 VPA Day 3 SURFACE 23-Apr-17 357 CB546 325 5 16 Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3 420 180 180 180 0 Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB546 VPA+ Day 5.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB546 VPA Day 5 SURFACE 25-Apr-17 357 CB546 325 7 16 Miller CB Expt 16 E0 PL Day 13 E5 Day 7 E7 Day 5 420 180 180 180 0 Miller CB Expt 16 E5 Day 7 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E5 Day 7 E7 Day 5/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB546 VPA+ Day 7.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB546 VPA Day 7 SURFACE 18-Apr-17 357 CB547 325 0 16 Miller CB Expt 16 E5 Day 0 420 180 180 180 0 Miller CB Expt 16 E5 Day 0 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E5 Day 0/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB547 VPA+ Day 0.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB547 VPA Day 0 SURFACE 21-Apr-17 357 CB547 325 3 16 Miller CB Expt 16 E0 Day 9 E5 Day 3 420 180 180 180 0 Miller CB Expt 16 E0 Day 9 E5 Day 3 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E0 Day 9 E5 Day 3/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB547 VPA+ Day 3.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB547 VPA Day 3 SURFACE 23-Apr-17 357 CB547 325 5 16 Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3 420 180 180 180 0 Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB547 VPA+ Day 5.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB547 VPA Day 5 SURFACE 25-Apr-17 357 CB547 325 7 16 Miller CB Expt 16 E0 PL Day 13 E5 Day 7 E7 Day 5 420 180 180 180 0 Miller CB Expt 16 E5 Day 7 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E5 Day 7 E7 Day 5/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB547 VPA+ Day 7.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB547 VPA Day 7 SURFACE 20-Apr-17 357 CB544 325 0 16 Miller CB Expt 16 E7 Day 0 420 180 180 180 0 Miller CB Expt 16 E7 Day 0 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E7 Day 0/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB544 VPA+ Day 0.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB544 VPA Day 0 SURFACE 23-Apr-17 357 CB544 325 3 16 Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3 420 180 180 180 0 Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB544 VPA+ Day 3.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB544 VPA Day 3 SURFACE 25-Apr-17 357 CB544 325 5 16 Miller CB Expt 16 E0 PL Day 13 E5 Day 7 E7 Day 5 420 180 180 180 0 Miller CB Expt 16 E5 Day 7 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E5 Day 7 E7 Day 5/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB544 VPA+ Day 5.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB544 VPA Day 5 SURFACE 27-Apr-17 357 CB544 325 7 16 Miller CB Expt 16 E0 PL Day 13 E5 Day 7 E7 Day 5_001 420 180 180 180 0 Miller CB Expt 16 E0 Day 15 E5 Day 9 E7 Day 7 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E0 Day 15 E5 Day 9 E7 Day 7/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB544 VPA+ Day 7.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB544 VPA Day 7 SURFACE 20-Apr-17 357 CB546 325 0 16 Miller CB Expt 16 E7 Day 0 420 180 180 180 0 Miller CB Expt 16 E7 Day 0 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E7 Day 0/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB546 VPA+ Day 0.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB546 VPA Day 0 SURFACE 23-Apr-17 357 CB546 325 3 16 Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3 420 180 180 180 0 Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB546 VPA+ Day 3.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB546 VPA Day 3 SURFACE 25-Apr-17 357 CB546 325 5 16 Miller CB Expt 16 E0 PL Day 13 E5 Day 7 E7 Day 5 420 180 180 180 0 Miller CB Expt 16 E5 Day 7 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E5 Day 7 E7 Day 5/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB546 VPA+ Day 5.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB546 VPA Day 5 SURFACE 27-Apr-17 357 CB546 325 7 16 Miller CB Expt 16 E0 PL Day 13 E5 Day 7 E7 Day 5_001 420 180 180 180 0 Miller CB Expt 16 E0 Day 15 E5 Day 9 E7 Day 7 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E0 Day 15 E5 Day 9 E7 Day 7/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB546 VPA+ Day 7.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB546 VPA Day 7 SURFACE 20-Apr-17 357 CB547 325 0 16 Miller CB Expt 16 E7 Day 0 420 180 180 180 0 Miller CB Expt 16 E7 Day 0 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E7 Day 0/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB547 VPA+ Day 0.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB547 VPA Day 0 SURFACE 23-Apr-17 357 CB547 325 3 16 Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3 420 180 180 180 0 Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E0 Day 11 E5 Day 5 E7 Day 3/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB547 VPA+ Day 3.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB547 VPA Day 3 SURFACE 25-Apr-17 357 CB547 325 5 16 Miller CB Expt 16 E0 PL Day 13 E5 Day 7 E7 Day 5 420 180 180 180 0 Miller CB Expt 16 E5 Day 7 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E5 Day 7 E7 Day 5/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB547 VPA+ Day 5.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB547 VPA Day 5 SURFACE 27-Apr-17 357 CB547 325 7 16 Miller CB Expt 16 E0 PL Day 13 E5 Day 7 E7 Day 5_001 420 180 180 180 0 Miller CB Expt 16 E0 Day 15 E5 Day 9 E7 Day 7 /Users/jia/Dropbox/Miller/cb_exp_16/Miller CB Expt 16 E0 Day 15 E5 Day 9 E7 Day 7/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB547 VPA+ Day 7.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB547 VPA Day 7 SURFACE 3-Jul-17 462 CB560 325 0 18 Miller CB Expt 18 E5 Day 0 420 180 180 180 0 Miller CB Expt 18 E5 Day 0 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E5 Day 0/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB560 VPA Day 0_007.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB560 VPA Day 0 SURFACE 3-Jul-17 462 CB561 325 0 18 Miller CB Expt 18 E5 Day 0 420 180 180 180 0 Miller CB Expt 18 E5 Day 0 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E5 Day 0/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB561 VPA Day 0_009.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB561 VPA Day 0 SURFACE 3-Jul-17 462 CB563 325 0 18 Miller CB Expt 18 E5 Day 0 420 180 180 180 0 Miller CB Expt 18 E5 Day 0 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E5 Day 0/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB563 VPA Day 0_010.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB563 VPA Day 0 SURFACE 6-Jul-17 462 CB560 325 3 18 Miller CB Expt 18 E0 Day 9 E5 Day 3 420 180 180 180 0 Miller CB Expt 18 E0 Day 9 E5 Day 3 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 9 E5 Day 3/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB560 VPA Day 3_022.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB560 VPA Day 3 SURFACE 6-Jul-17 462 CB561 325 3 18 Miller CB Expt 18 E0 Day 9 E5 Day 3 420 180 180 180 0 Miller CB Expt 18 E0 Day 9 E5 Day 3 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 9 E5 Day 3/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB561 VPA Day 3_023.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB561 VPA Day 3 SURFACE 6-Jul-17 462 CB563 325 3 18 Miller CB Expt 18 E0 Day 9 E5 Day 3 420 180 180 180 0 Miller CB Expt 18 E0 Day 9 E5 Day 3 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 9 E5 Day 3/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB563 VPA Day 3_024.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB563 VPA Day 3 SURFACE 8-Jul-17 462 CB560 325 5 18 Miller CB Expt 18 E0 Day11 E5 Day 5 E7 Day 3 420 180 180 180 0 Miller CB Expt 18 E0 Day 11 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 11 E5 Day 5 E7 Day 3/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB560 VPA Day 5_022.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB560 VPA Day 5 SURFACE 8-Jul-17 462 CB561 325 5 18 Miller CB Expt 18 E0 Day11 E5 Day 5 E7 Day 3 420 180 180 180 0 Miller CB Expt 18 E0 Day 11 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 11 E5 Day 5 E7 Day 3/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB561 VPA Day 5_023.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB561 VPA Day 5 SURFACE 8-Jul-17 462 CB563 325 5 18 Miller CB Expt 18 E0 Day11 E5 Day 5 E7 Day 3 420 180 180 180 0 Miller CB Expt 18 E0 Day 11 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 11 E5 Day 5 E7 Day 3/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB563 VPA Day 5_024.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB563 VPA Day 5 SURFACE 10-Jul-17 462 CB560 325 7 18 Miller CB Expt 18 E0 Day13 E5 Day 7 E7 Day 5 420 180 180 180 0 Miller CB Expt 18 E0 Day 13 E5 Day 7 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 13 E5 Day 7 E7 Day 5/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB560 VPA Day 7_022.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB560 VPA Day 7 SURFACE 10-Jul-17 462 CB561 325 7 18 Miller CB Expt 18 E0 Day13 E5 Day 7 E7 Day 5 420 180 180 180 0 Miller CB Expt 18 E0 Day 13 E5 Day 7 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 13 E5 Day 7 E7 Day 5/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB561 VPA Day 7_023.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB561 VPA Day 7 SURFACE 10-Jul-17 462 CB563 325 7 18 Miller CB Expt 18 E0 Day13 E5 Day 7 E7 Day 5 420 180 180 180 0 Miller CB Expt 18 E0 Day 13 E5 Day 7 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 13 E5 Day 7 E7 Day 5/Primary cells_CD34PE_ CD41 FITC_42APC_001_E5 CB563 VPA Day 7_024.fcs 385 E5 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E5 CB563 VPA Day 7 SURFACE 5-Jul-17 462 CB560 325 0 18 Miller CB Expt 18 E7 Day 0 420 180 180 180 0 Miller CB Expt 18 E7 Day 0 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E7 Day 0/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB560 Control Day 0_011.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB560 Control Day 0 SURFACE 8-Jul-17 462 CB560 325 3 18 Miller CB Expt 18 E0 Day11 E5 Day 5 E7 Day 3 420 180 180 180 0 Miller CB Expt 18 E0 Day 11 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 11 E5 Day 5 E7 Day 3/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB560 VPA Day 3_028.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB560 VPA Day 3 SURFACE 10-Jul-17 462 CB560 325 5 18 Miller CB Expt 18 E0 Day13 E5 Day 7 E7 Day 5 420 180 180 180 0 Miller CB Expt 18 E0 Day 13 E5 Day 7 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 13 E5 Day 7 E7 Day 5/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB560 VPA Day 5_028.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB560 VPA Day 5 SURFACE 12-Jul-17 462 CB560 325 7 18 Miller CB Expt 18 E0 Day 15 E5 Day 9 E7 Day 7 420 180 180 180 0 Miller CB Expt 18 E0 Day 15 E5 Day 9 E7 Day 7 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 15 E5 Day 9 E7 Day 7/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB560 VPA Day 7_028.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB560 VPA Day 7 SURFACE 5-Jul-17 462 CB561 325 0 18 Miller CB Expt 18 E7 Day 0 420 180 180 180 0 Miller CB Expt 18 E7 Day 0 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E7 Day 0/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB561 VPA Day 0_009.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB561 VPA Day 0 SURFACE 8-Jul-17 462 CB561 325 3 18 Miller CB Expt 18 E0 Day11 E5 Day 5 E7 Day 3 420 180 180 180 0 Miller CB Expt 18 E0 Day 11 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 11 E5 Day 5 E7 Day 3/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB561 VPA Day 3_029.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB561 VPA Day 3 SURFACE 10-Jul-17 462 CB561 325 5 18 Miller CB Expt 18 E0 Day13 E5 Day 7 E7 Day 5 420 180 180 180 0 Miller CB Expt 18 E0 Day 13 E5 Day 7 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 13 E5 Day 7 E7 Day 5/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB561 VPA Day 5_029.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB561 VPA Day 5 SURFACE 12-Jul-17 462 CB561 325 7 18 Miller CB Expt 18 E0 Day 15 E5 Day 9 E7 Day 7 420 180 180 180 0 Miller CB Expt 18 E0 Day 15 E5 Day 9 E7 Day 7 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 15 E5 Day 9 E7 Day 7/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB561 VPA Day 7_029.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB561 VPA Day 7 SURFACE 5-Jul-17 462 CB563 325 0 18 Miller CB Expt 18 E7 Day 0 420 180 180 180 0 Miller CB Expt 18 E7 Day 0 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E7 Day 0/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB563 VPA Day 0_010.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB563 VPA Day 0 SURFACE 8-Jul-17 462 CB563 325 3 18 Miller CB Expt 18 E0 Day11 E5 Day 5 E7 Day 3 420 180 180 180 0 Miller CB Expt 18 E0 Day 11 E5 Day 5 E7 Day 3 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 11 E5 Day 5 E7 Day 3/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB563 VPA Day 3_030.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB563 VPA Day 3 SURFACE 10-Jul-17 462 CB563 325 5 18 Miller CB Expt 18 E0 Day13 E5 Day 7 E7 Day 5 420 180 180 180 0 Miller CB Expt 18 E0 Day 13 E5 Day 7 E7 Day 5 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 13 E5 Day 7 E7 Day 5/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB563 VPA Day 5_030.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB563 VPA Day 5 SURFACE 12-Jul-17 462 CB563 325 7 18 Miller CB Expt 18 E0 Day 15 E5 Day 9 E7 Day 7 420 180 180 180 0 Miller CB Expt 18 E0 Day 15 E5 Day 9 E7 Day 7 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 15 E5 Day 9 E7 Day 7/Primary cells_CD34PE_ CD41 FITC_42APC_001_E7 CB563 VPA Day 7_030.fcs 385 E7 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 VPA+ E7 CB563 VPA Day 7 SURFACE 3-Jul-17 462 325 18 Miller CB Expt 18 E0 Day 6 420 180 180 180 0 Miller CB Expt 18 E0 Day 6 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 6/Primary cells_CD34PE_ CD41 FITC_42APC_001_apc beads_004.fcs 385 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 APC BEADS 3-Jul-17 462 325 18 Miller CB Expt 18 E0 Day 6 420 180 180 180 0 Miller CB Expt 18 E0 Day 6 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 6/Primary cells_CD34PE_ CD41 FITC_42APC_001_fitc beads_005.fcs 385 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 FITC BEADS 3-Jul-17 462 325 18 Miller CB Expt 18 E0 Day 6 420 180 180 180 0 Miller CB Expt 18 E0 Day 6 /Users/jia/Dropbox/Miller/cb_exp_18/Miller CB Expt 18 E0 Day 6/Primary cells_CD34PE_ CD41 FITC_42APC_001_pe beads_006.fcs 385 1 Primary cells_CD34PE_ CD41 FITC_42APC_001 200 PE BEADS \ No newline at end of file diff --git a/decorators.py b/decorators.py new file mode 100644 index 0000000..435f751 --- /dev/null +++ b/decorators.py @@ -0,0 +1,26 @@ +import time + +def timeit(method): + def timed(*args, **kw): + """ + Stores the number of milliseconds it took to run a function. + Output is the result dict -> keys are function names, + values are dicts -> in which keys are iteration number and values are ms. + """ + ts = time.time() + result = method(*args, **kw) + te = time.time() + if 'log_time' in kw: + name = kw.get('log_name', method.__name__.upper()) + + if name in kw['log_time']: + iter_number = len(kw['log_time'][name].keys()) + kw['log_time'][name][iter_number] = int((te - ts) * 1000) + else: + kw['log_time'][name] = {} + kw['log_time'][name][0] = int((te - ts) * 1000) + else: + print '%r %2.2f ms' % \ + (method.__name__, (te - ts) * 1000) + return result + return timed \ No newline at end of file diff --git a/run_pipeline.py b/run_pipeline.py index 8bf6e49..8694028 100644 --- a/run_pipeline.py +++ b/run_pipeline.py @@ -3,9 +3,6 @@ #matplotlib.use("Agg") import matplotlib.pyplot as plt -import cytoflow as flow -import timeit - import MetadataHelper import utility as util @@ -17,18 +14,18 @@ from LiveDeadReport import LiveDeadReport from SurfaceReport import SurfaceReport from PipelineHelper import executeXDGating +import datetime +import json if __name__ == '__main__': - flow.set_default_scale("logicle") plt.style.use('astroml') - DATE = '05092018' - config_name = 'controls_only' + DATE = '11142018' + config_name = 'controls_only_test' settings_path = "config/exp_{0!s}_config.yml".format(config_name) fs = False print("Running exp {0!s}...".format(config_name)) - start = timeit.default_timer() print("Loading settings...") settings = MetadataHelper.loadSettings(settings_path) print("Settings loaded!") @@ -37,8 +34,16 @@ all_stats = MetadataHelper.loadExistingFlowGates(pickle_path) all_stats = False if all_stats is False: - print("No exisiting gating found, generating new gates...") - fc_list = executeXDGating(settings, save=True, load=False) + print("No existing gating found, generating new gates...") + + pipeline_log = {} + fc_list = executeXDGating(settings, save=True, load=False, log_time = pipeline_log) + + to_date = datetime.datetime.today().strftime('%Y%m%d') + pipeline_output_log_file = "pipeline_log_{}.txt".format(to_date) + with open(pipeline_output_log_file, 'a') as out_file: + out_file.write(json.dumps(pipeline_log)) + print("Gating completed!") all_stats = util.get_allstats_table(fc_list, settings) @@ -154,6 +159,3 @@ new_agg_df[header]= new_agg_df['index'].apply(pd.Series) new_agg_df.dropna(axis=1, how='all', inplace=True) new_agg_df.to_csv('{}/{}_stats.tsv'.format(tables_directory,settings['EXP_NAME']), sep='\t', index=False) - - stop = timeit.default_timer() - print(stop-start, " to process exp ", str(config_name)) diff --git a/utility.py b/utility.py index e39b0d0..c3e2d8c 100644 --- a/utility.py +++ b/utility.py @@ -14,7 +14,6 @@ import cytoflow as flow import cytoflow.utility as cutil - def get_allstats_table(fc_list, settings): conditions_n = len(fc_list) all_stats = pd.DataFrame()