@01:00:00.00CET01-Jan-70 Simulated gateway v3.24 for core bus Copyright 2017 MBARI /home/esp/esp2/type/shallow/mer/configure.rb Configuration for MFB3 by preston@mbari.org /home/esp/esp2/type/mfb/MFB3/configure.rb Polling Can every 10:00 Loading /home/esp/esp2/mission/18tun.rb mission Preparing to sleep until +0:00:15 Shutdown Asleep til +0:00:15 Continuing at 01:00 @01:00:16.50 All dwarf controllers running firmware version 3.99 @01:00:31.57 Phase [coreNegNTCphase] ==================> STARTED coreNegNTC (phase #1) <=== Starting initialPurge Loading FlushPuck into Collection Clamp from FlushPuck::Garage @01:00:48.17CET01-Jan-70 Flushing the Collection Valve::Manifold @01:00:49.67 Pulling 5ml of CSR.flush @01:01:34.75 Purging external Intake @01:02:00.71 Flushing upper manifold @01:03:23.16 Garaging FlushPuck in Collection Clamp @01:03:36.67 Starting mfb pcrBAC wcr sampling at most 1500ml Loading sh1 puck from tube 2 into Collection Clamp Readying the MFB Homing MFB Syringe @01:03:51.39 skipping prime and sample collection Evacuating Puck (bubblePt=55psi, evacVolume=10ml, delay 15 seconds) Calibrating pressure and temperature sensors @01:04:48.76 BubblePoint: Intake @14.7psia, Outlet @14.7psia @01:05:09.06 Evacuated: Intake @14.7psia, Outlet @14.7psia @01:05:37.12 Evacuating Puck (bubblePt=55psi, evacVolume=10ml, delay 15 seconds) @01:06:23.38 BubblePoint: Intake @14.7psia, Outlet @14.7psia @01:06:43.68 Evacuated: Intake @14.7psia, Outlet @14.7psia @01:07:11.73 Lysing: Adding 0.5ml lysis @01:07:15.69 Pulling 1ml of CSR.lysis @01:07:50.15 Pulling 0.5ml of CSR.lysis @01:08:13.72 Heating sh1 puck from tube 2 in Collection Clamp to 85C for 5:00 @01:15:07.72 Collection Puck Heater at 85C after lysing @01:15:51.78 Adding 1.0ml diluent to lysate @01:15:52.53 NameError in quick -- undefined local variable or method `diluentVol' for main:Object Waiting to Resume from Checkpoint "Adding 1.0ml diluent to lysate" @01:00:00.00CET01-Jan-70 Simulated gateway v3.24 for core bus Copyright 2018 MBARI /home/esp/esp2/type/shallow/mer/configure.rb Configuration for MFB3 by preston@mbari.org /home/esp/esp2/type/mfb/MFB3/configure.rb Polling Can every 10:00 Loading /home/esp/esp2/mission/18tun_postDeploy.rb mission Preparing to sleep until +0:00:15 Shutdown Asleep til +0:00:15 Continuing at 01:00 @01:00:16.50 All dwarf controllers running firmware version 3.99 @01:00:31.57 Phase [postDeployPhase] ==================> STARTED postDeploycoreNegNTC (phase #1) <=== Starting mfb pcrBAC wcr sampling at most 0ml Loading sh1 puck from tube 4 into Collection Clamp Readying the MFB Homing MFB Syringe @01:00:49.88CET01-Jan-70 skipping prime and sample collection Evacuating Puck (bubblePt=55psi, evacVolume=10ml, delay 15 seconds) Calibrating pressure and temperature sensors @01:01:47.26 BubblePoint: Intake @14.7psia, Outlet @14.7psia @01:02:07.56 Evacuated: Intake @14.7psia, Outlet @14.7psia @01:02:35.61 Evacuating Puck (bubblePt=55psi, evacVolume=10ml, delay 15 seconds) @01:03:21.87 BubblePoint: Intake @14.7psia, Outlet @14.7psia @01:03:42.18 Evacuated: Intake @14.7psia, Outlet @14.7psia @01:04:10.23 Lysing: Adding 1.5ml lysis @01:04:14.18 Pulling 1ml of CSR.lysis @01:04:22.81 Session Begun -> abort! "something wrong with mission" CmdServer::Client::Error in mwj -- Aborting Mission: something wrong with mission Storage::Warning in quick -- Exiting with Collection Clamp holding Puck.from 4, :sh1 Session Ended @01:00:00.00CET01-Jan-70 Simulated gateway v3.24 for core bus Copyright 2018 MBARI /home/esp/esp2/type/shallow/mer/configure.rb Configuration for MFB3 by preston@mbari.org /home/esp/esp2/type/mfb/MFB3/configure.rb Polling Can every 10:00 Waiting for espclients... Log::Locked in trapHandler -- Another process is already writing to /var/log/esp/quick.log Session Begun -> showlog -> abort! CmdServer::Client::Error in bkha -- Attempt to Abort Mission without specifying a reason! -> abort! "test" CmdServer::Client::Error in bkha -- Aborting Mission: test Session Ended @01:00:00.00CET01-Jan-70 Simulated gateway v3.24 for core bus Copyright 2018 MBARI /home/esp/esp2/type/shallow/mer/configure.rb Configuration for MFB3 by preston@mbari.org /home/esp/esp2/type/mfb/MFB3/configure.rb Polling Can every 10:00 Waiting for espclients... Session Begun Session Begun -> # simulerer lige -> execute "18tun_postDeploy.rb" Preparing to sleep until +0:00:15 Shutdown Asleep til +0:00:15 Continuing at 01:00 -> exit Session Ended @01:00:16.50 All dwarf controllers running firmware version 3.99 @01:00:31.57 Phase [postDeployPhase] ==================> STARTED postDeploycoreNegNTC (phase #1) <=== Starting mfb pcrBAC wcr sampling at most 0ml Loading sh1 puck from tube 4 into Collection Clamp Readying the MFB Homing MFB Syringe @01:00:49.88CET01-Jan-70 skipping prime and sample collection Evacuating Puck (bubblePt=55psi, evacVolume=10ml, delay 15 seconds) Calibrating pressure and temperature sensors @01:01:47.26 BubblePoint: Intake @14.7psia, Outlet @14.7psia @01:02:07.56 Evacuated: Intake @14.7psia, Outlet @14.7psia @01:02:35.61 Evacuating Puck (bubblePt=55psi, evacVolume=10ml, delay 15 seconds) @01:03:21.87 BubblePoint: Intake @14.7psia, Outlet @14.7psia @01:03:42.18 Evacuated: Intake @14.7psia, Outlet @14.7psia @01:04:10.23 Lysing: Adding 1.5ml lysis @01:04:14.18 Pulling 1ml of CSR.lysis @01:04:48.64 Pulling 1.5ml of CSR.lysis @01:05:18.72 Heating sh1 puck from tube 4 in Collection Clamp to 85C for 5:00 @01:12:12.72 Collection Puck Heater at 85C after lysing @01:12:55.40 Recovering Lysate into Collection syringe @01:13:37.17 Lysing Complete Storing sh1 puck in Collection Clamp to tube 3 @01:13:50.63 I2C::Servo::Model::Warning in manipulator -- force -20% treated as 0% in simulation @01:13:53.78 Tranferring lysate to PRV @01:13:54.95 Beginning samplePassC Loading FlushPuck into Collection Clamp from FlushPuck::Garage @01:14:11.57 Pulling 1.5ml of PSR.flush @01:17:30.50 Garaging FlushPuck in Collection Clamp @01:17:44.00 Connecting PS to CS to transfer sample Loading lyfil puck from tube 4 into Collection Clamp @01:24:16.22 Storing lyfil puck in Collection Clamp to tube 3 @01:24:23.77 I2C::Servo::Model::Warning in manipulator -- force -20% treated as 0% in simulation @01:24:38.29 I2C::Servo::Model::Warning in manipulator -- force -20% treated as 0% in simulation @01:25:06.23 Loading FlushPuck into Collection Clamp from FlushPuck::Garage @01:25:21.35 Clearing PML for modified lysate @01:26:29.99 mixing lysate with speDil @01:30:22.88 Pushing modified lysate into AIV Injection Loop @01:35:23.76 Extracting Nucleic Acid from AIV Beginning samplePassD @01:35:24.89 Pulling 1.5ml of PSR.killMFB @01:35:43.97 primeLysateINT @01:36:57.16 Pulling 1.5ml of PSR.flush @01:37:19.64 Lysate primed! @01:38:29.44 Pulling 1.5ml of PSR.flush @01:39:03.24 Solid Phase Extraction Heater at 55C @01:40:01.71 Pulling 1.5ml of PSR.flush @01:40:39.75 rinseLysateLineINT @01:43:43.36 ethanol wash @01:43:57.44 Pulling 0.4ml of Ethanol Wash @01:44:24.58 Cleaning Collection Syringe @01:44:24.96 Pulling 4ml of CSR.flush UserAbort in bkha -- -> abort! "test" CmdServer::Client::Error in bkha -- Aborting Mission: test -> abort! "test" CmdServer::Client::Error in bkha -- Aborting Mission: test Storage::Warning in quick -- Exiting with Collection Clamp holding FlushPuck Session Ended @01:00:00.00CET01-Jan-70 Simulated gateway v3.24 for core bus Copyright 2018 MBARI /home/esp/esp2/type/shallow/mer/configure.rb Configuration for MFB3 by preston@mbari.org /home/esp/esp2/type/mfb/MFB3/configure.rb Polling Can every 10:00 Loading /home/esp/esp2/mission/TotalWCRTest.rb mission Preparing to sleep until +00:00:10 Shutdown Asleep til +00:00:10 Continuing at 01:00 @01:00:11.50 All dwarf controllers running firmware version 3.99 @01:00:26.57 Phase [wcrPhase2] ==================> STARTED WCRSphase (phase #1) <=== Starting stand-alone bac WCR bac wcr sampling at most 2000ml Whole Cell Archive sampling 2000ml Loading wcr puck from tube 2 into Collection Clamp @01:00:41.33CET01-Jan-70 collectSample 2000ml w/bubble point of 55psi Priming 7ml @01:00:41.40 Calibrating pressure and temperature sensors @01:01:24.60 Sampling 2000.0ml @03:07:51.14 Sampled 2000.0ml Drying puck before fixing for 4:00 @03:09:01.74 Pumping wcr puck from tube 2 up to 55psi... @03:10:30.99 Fix #1 of 2 (with rnal) for 2:00 @03:10:31.36 Pulling 2ml of CSR.rnal @03:10:50.72 Pumping wcr puck from tube 2 up to 55psi... @03:14:21.09 Fix #2 of 2 (with rnal) for 2:00 @03:14:21.47 Pulling 2ml of CSR.rnal @03:14:40.82 Pumping wcr puck from tube 2 up to 55psi... @03:18:11.19 Storing wcr puck in Collection Clamp to tube 1 @03:18:24.66 I2C::Servo::Model::Warning in manipulator -- force -20% treated as 0% in simulation @03:18:27.81 Starting finalPurge Loading FlushPuck into Collection Clamp from FlushPuck::Garage @03:18:42.93 Flushing the Collection Valve::Manifold @03:18:43.30 Pulling 5ml of CSR.flush @03:19:28.38 Flushing lower manifold's waste1 port @03:19:54.72 Flushing lower manifold's waste2b port @03:20:20.30 Flushing upper manifold @03:21:44.26 Disinfecting external Intake with mfbkill @03:21:45.76 Pulling 8ml of CSR.mfbkill @03:22:20.19 Flushing lower manifold's waste1 port @03:22:21.32 Pulling 4ml of CSR.mfbkill @03:22:55.69 Flushing lower manifold's waste2b port @03:22:56.06 Pulling 4ml of CSR.mfbkill @03:23:29.67 Killing upper manifold @03:23:30.05 Pulling 4ml of CSR.mfbkill @03:24:22.67 Flushing upper manifold @03:25:44.75 Flushing lower manifold's waste1 port @03:26:10.71 Flushing lower manifold's waste2b port @03:26:36.29 Disinfecting external Intake with kill @03:26:36.66 Pulling 8ml of CSR.kill @03:27:12.23 Pulling 5ml of CSR.flush @03:28:12.40 Garaging FlushPuck in Collection Clamp @03:28:25.90 Completed [wcrPhase2] begun 01:00:26 Asleep after completing TotalWCRTest assays Mission runtime was 25.409265 seconds