Exploration_of_fishiStockAggr00FEPS_TR_12014-09-08 10:48:26.983 UTCThe stock aggregate, with abundance represented as terminal run (TR), is user defined from the list of significant stocks from the regression and elasticity analyses. The user needs to see “Elasticities of Interaction Method Matrix Pert._Population_(Beta Regressions).pdf” or “Elasticity of Interactions_Population.csv” to select relevant stock aggregates for further analysis.2014-09-08 10:48:17.112 UTCTRE_R00This file contains the time series of terminal run equivalents (TREs) of all ER indicator stocks.2014-09-11 17:25:04.966 UTC2014-09-11 17:20:13.553 UTCER_Indicators_R00This file shows the exploitation rate (ER) indicator stocks used to represent exploitation-rate time series with terminal-run time series of Chinook salmon aggregates. 2014-09-11 17:23:02.992 UTC2014-09-11 17:19:34.64 UTCTRE_HR_R002014-09-11 17:20:02.881 UTCThis file contains the time series of terminal run equivalent (TRE) ocean harvest rates of ER indicator stocks.
Chinook salmon is an anadromous and semelparous species that spend 1-5 years in the ocean before returning to their natal streams to spawn. For the exploration of fishing scenarios where changes in terminal run size occur as a result of changes in ocean (i.e. pre-terminal) harvest rates, terminal run equivalents (TRE) were used to account for the fact that only a portion of the fish not caught in ocean fisheries in a given year is expected to become part of the terminal run according to their maturation rates (MR), which are time variant and stock specific. Age-2 Chinook were not included in this equation because RKW prey mostly on age-3 and older Chinook. TREs were then used to compute both proportional increases in terminal run size in the absence of pre-terminal (i.e. ocean) fishing and the terminal run scalars resulting from a specified change in ocean harvest rates in exploitation rate indicator stocks. These scalars were then used to calculate changes in terminal run of a stock of interest (more details in Vélez-Espino et al. In press).
2014-09-11 17:24:47.432 UTCTerm_Run_R002014-09-11 17:19:55.49 UTCThis file contains the time series of terminal run for each of the ER indicator stocks.2014-09-11 17:20:42.138 UTCWorkspace00An R Workspace that transfers values from the Resident killer whale-chinook salmon interactions (main) workflow to the Exploration of fishing scenario (post-processing) workflow. The zip file must be provided as an input to the post-processing workflow in order for it to have access to values generated in the main workflow. Therefore, take in account the input values used to run the main workflow.2014-09-11 17:21:45.108 UTCMult001.52013-11-27 14:27:50.10 UTCThis is a user-defined multiplier of ocean harvest rates impacting terminal runs. Mult = 0.0 indicates the closure of ocean fisheries; Mult = 1.0 indicates no change in base values; Mult = 1.5 indicates a 50% increase in ocean HRs. 2014-09-08 10:47:04.210 UTCStockAggrOA00CW_OA_22013-11-27 14:27:50.10 UTCThe stock aggregate, with abundance represented as ocean abundance (OA), is user defined from the list of significant stocks from the regression and elasticity analyses. The user needs to see “Elasticities of Interaction Method Matrix Pert._Population_(Beta Regressions).pdf” or “Elasticity of Interactions_Population.csv” to select relevant stock aggregates for further analysis.2014-09-08 10:48:43.406 UTCMLT00This is a user-defined inverse multiplier for the harvest rate (HR) that affects the stock aggregates directly. MLT is inversely proportional to HRs but directly proportional to killer whale vital rates. MLT = 0.0 is used to maximize HRs. MLT values between 1.0 and 2.0 are used to represent increments in ocean abundance proportional to percent reductions in HRs.2014-09-08 10:46:43.158 UTC1.642013-11-27 14:27:50.10 UTCUseFImpacts00FALSE2013-11-27 14:27:50.10 UTCInstead of ocean abundance, the user can select time series of fishery impacts to run the analyses. In this case, the interaction would be between killer whale vital rates and fishing impacts rather than Chinook salmon ocean abundance. Choose “FALSE” to conduct analyses at the ocean abundance level.2014-09-08 10:50:05.28 UTCzipFile0Projections_of_Pop_Size_SRKW_1987-2011_CW_OA_2
Projections_of_Pop_Size_SRKW_1987-2011_FEPS_TR_1
IID_OA_Matrices_CW_OA_2_SRKW
IID_S_Matrices_FEPS_TR_1_SRKW
Mean_Matrix_Scenario_CW_OA_2_SRKW
Mean_Matrix_Scenario_FEPS_TR_1_SRKW
SD_Matrix_Scenario_CW_OA_2_SRKW
SD_Matrix_Scenario_FEPS_TR_1_SRKW2014-09-11 17:18:30.306 UTCZip file with the results of workflow.
Results when a run is done with the defaults inputs (see tutorial). 2014-09-11 17:17:17.811 UTCResident_killer_whalStockAggr0TRE_R0ER_Indicators_R0TRE_HR_R0Term_Run_R0Workspace0Mult0StockAggrOA0MLT0UseFImpacts0endYear00startYear00population00Mean_Matrix_Scenario_OA00IID_S_Matrices00SD_Matrix_Scenario_OA00IID_OA_Matrices00Mean_Matrix_Scenario_S00SD_Matrix_Scenario_S00Projections_of_Pop_Size_S00Projections_of_Pop_Size_OA00net.sf.taverna.t2.activitiesdataflow-activity1.5net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize1net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry1.0100050000net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeCreate_zip_fileIID_S_Matrices0SD_Matrix_Scenario_S0Mean_Matrix_Scenario_OA0Projections_of_Pop_Size_S0Mean_Matrix_Scenario_S0SD_Matrix_Scenario_OA0IID_OA_Matrices0StockAggrOA0StockAggr0Projections_of_Pop_Size_OA0EndYear0StartYear0Population0zipFile00net.sf.taverna.t2.activitiesdataflow-activity1.5net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize1net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry1.0100050000net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeValidate_UseFImpactss0s00net.sf.taverna.t2.activitiesbeanshell-activity1.5net.sf.taverna.t2.activities.beanshell.BeanshellActivitys0text/plainjava.lang.Stringtrues00workflownet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize1net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry1.0100050000net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeResident_killer_whalStockAggrResident_killer_whalTRE_RResident_killer_whalER_Indicators_RResident_killer_whalTRE_HR_RResident_killer_whalTerm_Run_RResident_killer_whalWorkspaceResident_killer_whalMultResident_killer_whalStockAggrOAResident_killer_whalMLTResident_killer_whalUseFImpactsCreate_zip_fileIID_S_MatricesCreate_zip_fileSD_Matrix_Scenario_SCreate_zip_fileMean_Matrix_Scenario_OACreate_zip_fileProjections_of_Pop_Size_SCreate_zip_fileMean_Matrix_Scenario_SCreate_zip_fileSD_Matrix_Scenario_OACreate_zip_fileIID_OA_MatricesCreate_zip_fileStockAggrOACreate_zip_fileStockAggrCreate_zip_fileProjections_of_Pop_Size_OACreate_zip_fileEndYearCreate_zip_fileStartYearCreate_zip_filePopulationValidate_UseFImpactsszipFile3781e6c5-e4d4-45da-b74f-d829179ee95d2014-09-08 10:57:16.882 UTCdefac11b-7626-45c2-a029-834a34fea4b92014-09-24 14:02:19.506 UTCdfa384ae-05d2-441a-8ded-512fcad1f0792014-09-19 21:51:40.953 UTC55e8009c-30d2-4477-86fa-12e3a446f4692014-09-18 16:07:51.266 UTCd95df170-404f-4f4d-b453-2b44e28b65512014-09-19 21:11:58.643 UTCd5ebe844-a676-44e6-8138-07a88c18e57c2014-09-19 21:33:16.219 UTCcda57cd1-5f09-4374-a054-f6c3fa93192f2014-09-19 15:57:02.693 UTC40c28a03-f3a2-4063-a77e-07ef95f038a52014-09-08 10:48:27.163 UTC7c3de942-98a0-4ef9-bb89-c55a0a8f20362014-09-11 19:32:52.269 UTCc9070e8a-ff3e-4ab8-8d43-e30a861c981c2014-08-29 10:44:38.302 UTCb8b7158a-af43-4285-a5a9-579ac363b4ee2014-08-28 14:37:27.889 UTC63a3a885-6d48-4f9d-bcfb-0f54da20a3e42014-09-18 16:35:34.421 UTCfff47fdb-f894-437d-b6f4-32ae9e5de8a02014-09-24 13:42:56.254 UTC3615cae8-088e-4a70-a2d9-ea710b10629c2014-09-10 11:48:26.126 UTC96ba3463-9daa-45eb-b802-524a6862b00b2014-09-08 11:05:08.948 UTC1915ef29-664f-4e4a-bd35-64ec503a10222014-09-11 17:24:47.622 UTCThis workflow must run after the workflow: Resident killer whale-chinook salmon interactions. The interaction workflows generates a PostWorkspace file, this is a zip file and it is an R Workspace that transfers values from the Resident killer whale-chinook salmon interactions (main) workflow to the Exploration of fishing scenario (post-processing) workflow.
This workflow merges statistical inference derived from linkages between RKW vital rates (survival probability and fecundity rates) and chinook salmon abundance with demographic perturbation analysis and population viability analysis to address some of the pressing questions that have recently engaged the efforts of scientists and managers interested in: (1) the role of chinook salmon abundance in the population dynamics of RKW; and (2) how RKW population viability is expected to respond to changes in chinook mortality owing to harvest.
This workflow can be used to analyze interactions between chinook salmon abundance from specific stock aggregates and killer whale vital rates, the effect of these interactions on killer whale population growth, and the exploration of Chinook salmon fishing scenarios on killer whale population growth and short term projections of population size. See necessary input data.
To run this workflow in Taverna Workbench Biodiversity 2.5 requires an Rserve installation with the popbio, lattice, betareg, Formula and R.utils packages installed.
This workflow has been created by the Biodiversity Virtual e-Laboratory (BioVeL http://www.biovel.eu/) project and Fisheries and Oceans of Canada, BC, Canada. (http://www.pac.dfo-mpo.gc.ca/index-eng.html). BioVeL is funded by the EU’s Seventh Framework Program, grant no. 283359.
References:
Vélez-Espino, L.A., John K.B. Ford, Eric Ward, Chuck K. Parken, Larrie LaVoy, Ken Balcomb, M. Bradley Hanson, Dawn. P. Noren, Graeme Ellis, Tom Cooney, and Rishi Sharma. 2013. Sensitivity of resident Killer Whale population dynamics to Chinook salmon abundance. Completion Report, Pacific Salmon Commission, Southern Boundary Restoration and Enhancement Fund, Vancouver BC. 191 p.
Vélez-Espino, L.A., Ford, J.K.B., Araujo, H.A., Ellis, G., Parken, C.K, & Balcomb, K. 2014. Comparative demography and viability of northeast Pacific resident killer whale populations at risk. Can. Tech. Rep. Fish. Aquat. Sci. 3084: vi + 56 p.
Vélez-Espino, L.A., John K.B. Ford, H. Andres Araujo, Graeme Ellis, Charles K. Parken and Rishi Sharma. 2014. Relative importance of Chinook salmon abundance on resident killer whale population growth and viability. Aquatic Conservation: Marine and Freshwater Ecosystems. Article first published online: 21 AUG 2014. DOI: 10.1002/aqc.2494.2014-09-26 07:54:17.995 UTCExploration of fishing scenarios2014-09-10 11:48:24.750 UTC86748f30-4b04-461b-a469-6e9f93a4035c2014-09-11 17:21:51.439 UTC083e53c1-c921-476a-893f-ec2fa51f4a702014-09-26 07:54:19.747 UTC4c0744d2-d9bd-43dd-b0ab-0a9dbd2c9fa72014-09-19 15:46:01.986 UTCf1612cb3-acfe-4cc4-8969-8b2e42ee5c592014-09-19 15:27:50.722 UTCea674676-802b-4f01-b5a6-ce7b8d2b1a632014-09-10 09:15:21.980 UTCL. Antonio Vélez-Espino, H. Andres Araujo, Maria Paula Balcazar-Vargas, Jonathan Giddy and Francisco Quevedo2014-09-24 13:42:26.219 UTCf034c8ad-1a89-4741-8356-69931f2d5b642014-08-28 14:23:22.191 UTCa2ea0fb2-8c22-44be-9bef-76b157cdacaa2014-09-08 11:06:10.828 UTC62c8c384-5530-4d32-a8f0-39a087e188982014-09-19 21:38:19.337 UTC774c9956-07bf-4b08-871d-07ad01ed0b1b2014-09-11 19:34:13.601 UTCe4be8289-927b-4317-842e-9deb026828542014-09-11 17:25:13.619 UTCf9c79cad-eb2c-4aff-ad1a-dd667e5f75702014-09-24 09:22:48.812 UTCce9d76ca-c6b3-4aa3-9d6e-f4082ed739462014-09-11 17:18:42.713 UTCResident_killer_whalStockAggr00FEPS_TR_12013-11-27 14:27:50.10 UTCLabel for Fishing Scenarios Terminal Run2013-11-27 14:27:50.10 UTCTRE_R00Terminal Run Equivalent data2013-11-27 14:27:50.10 UTCER_Indicators_R00Stock Table2013-11-27 14:27:50.10 UTCTRE_HR_R00Terminal Run HR data2013-11-27 14:27:50.10 UTCTerm_Run_R00Terminal Run2013-11-27 14:27:50.10 UTCWorkspace00Mult001.52013-11-27 14:27:50.10 UTCMultiplier of Ocean HR affecting TR2013-11-27 14:27:50.10 UTCStockAggrOA00CW_OA_22013-11-27 14:27:50.10 UTCLabel for Chinook Ocean Abundance2013-11-27 14:27:50.10 UTCMLT00Multiplier. In OA is directly proportional to VR; Between 1 and 2 only for increases in OA. FI is an alternative measure of OA and is also directly proportional to VR.
The multiplier MLT can take values from 0.0 to 2.0, with the latter value impling HR=02013-11-27 14:27:50.10 UTC1.642013-11-27 14:27:50.10 UTCUseFImpacts00FALSE2013-11-27 14:27:50.10 UTCUse Fishery Impacts data and definitions2013-11-27 14:27:50.10 UTCSD_Matrix_Scenario_S0Mean_Matrix_Scenario_S0Projections_of_Pop_Size_S0SD_Matrix_Scenario_OA0Mean_Matrix_Scenario_OA0Projections_of_Pop_Size_OA0IID_S_Matrices0IID_OA_Matrices0startYear0endYear0population0FishingScenariosTerminalRun_16TRE_R0ER_Indicators_R0TRE_HR_R0Term_Run_R0Workspace0Mult0StockAggr0YearIntervals2SD_Matrix_Scenario00Mean_Matrix_Scenario00Projections_of_Pop_Size_IID00IID_S_Matrices00net.sf.taverna.t2.activitiesdataflow-activity1.5net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize1net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry1.0100050000net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeChinookOceanAbundance_17Workspace0MLT0UseFImpacts0StockAggrOA0YearIntervals2SD_Matrix_Scenario00Mean_Matrix_Scenario00Projections_of_Pop_Size_PDF00IID_OA_Matrices00net.sf.taverna.t2.activitiesdataflow-activity1.5net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize1net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry1.0100050000net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeGetVariablesFromWorkspaceRWorkspace0endYearWorkspace00populationWorkspace00startYearWorkspace00yearIntervalsSelWorkspace00net.sf.taverna.t2.activitiesrshell-activity1.5net.sf.taverna.t2.activities.rshell.RshellActivityRWorkspace0falsestartYearWorkspace00endYearWorkspace00populationWorkspace00yearIntervalsSelWorkspace00falselocalhost6311falsefalseRWorkspacePNG_FILEstartYearWorkspaceINTEGERendYearWorkspaceINTEGERpopulationWorkspaceSTRINGyearIntervalsSelWorkspaceSTRINGnet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize1net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry1.0100050000net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetListOfListYearIntervalsSelsYearIntervalsSelWorkspace0yearIntervalsSel22net.sf.taverna.t2.activitiesbeanshell-activity1.5net.sf.taverna.t2.activities.beanshell.BeanshellActivitysYearIntervalsSelWorkspace0text/plainjava.lang.StringtrueyearIntervalsSel22workflownet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize1net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry1.0100050000net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeFishingScenariosTerminalRun_16TRE_RFishingScenariosTerminalRun_16ER_Indicators_RFishingScenariosTerminalRun_16TRE_HR_RFishingScenariosTerminalRun_16Term_Run_RFishingScenariosTerminalRun_16WorkspaceFishingScenariosTerminalRun_16MultFishingScenariosTerminalRun_16StockAggrFishingScenariosTerminalRun_16YearIntervalsChinookOceanAbundance_17WorkspaceChinookOceanAbundance_17MLTChinookOceanAbundance_17UseFImpactsChinookOceanAbundance_17StockAggrOAChinookOceanAbundance_17YearIntervalsGetVariablesFromWorkspaceRWorkspacegetListOfListYearIntervalsSelsYearIntervalsSelWorkspaceSD_Matrix_Scenario_SMean_Matrix_Scenario_SProjections_of_Pop_Size_SSD_Matrix_Scenario_OAMean_Matrix_Scenario_OAProjections_of_Pop_Size_OAIID_S_MatricesIID_OA_MatricesstartYearendYearpopulationResident killer whale population dynamics post processing 2014-07-102013-11-27 14:27:50.10 UTC7b1bf026-4ce4-48dc-9f93-2c12f33b3bb12014-09-24 09:22:20.499 UTCL. Antonio Vélez-Espino, H. Andres Araujo and Maria Paula Balcazar-Vargas2013-11-27 14:27:50.10 UTC312a6a58-42d1-4c84-b45a-2f0435b08ddd2014-09-19 15:55:30.726 UTC61f2a401-3038-4cbe-97cf-5a9636e2bfb02014-09-19 21:11:42.31 UTC89551fe4-c2a4-462f-ba6f-25db7272d4c92014-09-19 15:39:18.622 UTC0e595785-8eb6-4ea4-a3b7-a1a28f03a5442014-09-19 21:51:33.432 UTC9a372468-df1f-451c-9ef7-0f82dca8e4922014-09-19 15:27:43.741 UTC2aa293e3-9669-4c86-a96f-3f6f401939682014-09-19 21:33:08.208 UTC15383169-35fb-4365-8174-58699543082a2014-08-28 14:09:09.635 UTCThis workflow analyses the demography and population viability analysis (PVA) of endangered SRKW and threatened NRKW. Two distinct populations of resident killer whales (Orcinus orca) in the north-eastern Pacific Ocean have been listed in Canada and the U.S. as of conservation concern. The Southern Resident Killer Whale (SRKW) population is currently listed as endangered in both countries. The Northern Resident Killer Whale (NRKW) population has been listed as threatened in Canada.
This workflow can be used to analyse the demography and extinction probability of other killer whales populations. See necessary input data.
This workflow requires an instance of Rserve on localhost.
This workflow uses R packages popbio, lattice, betareg, Formula and R.utils.
This workflow has been created by the Biodiversity Virtual e-Laboratory (BioVeL http://www.biovel.eu/) project and Fisheries and Oceans of Canada, BC, Canada. (http://www.pac.dfo-mpo.gc.ca/index-eng.html). BioVeL is funded by the EU’s Seventh Framework Program, grant no. 283359.
References:
Vélez-Espino, L.A., Ford, J.K.B., Araujo, H.A., Ellis, G., Parken, C.K., and Balcomb, K.C. 2013a. Comparative demography and viability of northeast Pacific resident killer whale populations at risk. Biological Conservation BIOC-S-13-00856. In press.
2013-11-27 14:27:50.10 UTC49da7c28-8abc-4293-a5ad-51a099bb2d0a2014-09-19 21:38:04.755 UTCConvert_Taverna_listlist_of_r_expressions22r_list_of_expressions1RExpressionToStringstringlist1concatenated00net.sf.taverna.t2.activitiesbeanshell-activity1.5net.sf.taverna.t2.activities.beanshell.BeanshellActivityseperator0text/plainjava.lang.Stringtruestringlist1text/plainjava.lang.Stringtrueconcatenated00workflownet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize1net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry1.0100050000net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeJoinListOfStringsIntoRListstringlist1output11net.sf.taverna.t2.activitiesbeanshell-activity1.5net.sf.taverna.t2.activities.beanshell.BeanshellActivitystringlist1text/plainjava.lang.Stringtrueoutput11workflownet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize1net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry1.0100050000net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeRExpressionToStringstringlistJoinListOfStringsIntoRListstringlistr_list_of_expressionsConvert Taverna list of RExpr to R list2013-11-27 14:27:50.10 UTCThis workflow accepts a Taverna list of arbitrary R expressions and returns a single R expression representing an R list containing the original expressions.
This workflow relies on the current Taverna behaviour of an R expression being represented by a list of strings containing the deparsed expression. If this changes, this workflow will likely break.
The first BeanShell converts each R expression (actually a list of strings) to a single string. This uses implicit iteration to do this for each R expression, so input port depth is 2 but the BeanShell input depth is 1.
The second Beanshell creates a comma-separated list of the deparsed R expressions and wraps the string with the R list() function. So now we have a single string s that can be turned into an R list using eval(parse(text=s)).
But RShell already does that parsing for us, so we just need to ensure the string looks like an R expression by turning it into a list of strings. So we actually output a 1-element list containing the string.
Version 1: initial implementation
Version 2: reduce number of BeanShells
2013-11-27 14:27:50.10 UTCJonathan Giddy2013-11-27 14:27:50.10 UTCf365c569-b2f3-4a8b-a4a5-fde29c2675b92014-08-28 14:09:09.775 UTCWorkflow16Population00StartYear00EndYear00SD_Matrix_Scenario_S00Mean_Matrix_Scenario_S00Projections_of_Pop_Size_S00SD_Matrix_Scenario_OA00Mean_Matrix_Scenario_OA00Projections_of_Pop_Size_OA00IID_S_Matrices00IID_OA_Matrices00StockAggr00StockAggrOA00zipFile0save_results_and_rename_filesEndYear0StartYear0Population0resultsFolder0IID_OA_Matrices0IID_S_Matrices0Projections_of_Pop_Size_OA0Mean_Matrix_Scenario_OA0SD_Matrix_Scenario_OA0Projections_of_Pop_Size_S0Mean_Matrix_Scenario_S0SD_Matrix_Scenario_S0StockAggr0StockAggrOA0pathFolderResults00net.sf.taverna.t2.activitiesrshell-activity1.5net.sf.taverna.t2.activities.rshell.RshellActivitySD_Matrix_Scenario_S0falseMean_Matrix_Scenario_S0falseProjections_of_Pop_Size_S0falseSD_Matrix_Scenario_OA0falseMean_Matrix_Scenario_OA0falseProjections_of_Pop_Size_OA0falseIID_S_Matrices0falseIID_OA_Matrices0falseStockAggr0falseStockAggrOA0falseEndYear0falseStartYear0falsePopulation0falseresultsFolder0falsepathFolderResults00falselocalhost6311falsefalseSD_Matrix_Scenario_STEXT_FILEMean_Matrix_Scenario_STEXT_FILEProjections_of_Pop_Size_SPNG_FILESD_Matrix_Scenario_OATEXT_FILEMean_Matrix_Scenario_OATEXT_FILEProjections_of_Pop_Size_OAPNG_FILEIID_S_MatricesTEXT_FILEIID_OA_MatricesTEXT_FILEStockAggrSTRINGStockAggrOASTRINGEndYearSTRINGStartYearSTRINGPopulationSTRINGresultsFolderSTRINGpathFolderResultsSTRINGnet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize1net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry1.0100050000net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokecreate_zip_FilepathFolderResults0zipFile00net.sf.taverna.t2.activitiesbeanshell-activity1.5net.sf.taverna.t2.activities.beanshell.BeanshellActivitypathFolderResults0text/plainjava.lang.StringtruezipFile00workflownet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize1net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry1.0100050000net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokecreate_results_folderresultsFolder00net.sf.taverna.t2.activitiesbeanshell-activity1.5net.sf.taverna.t2.activities.beanshell.BeanshellActivityresultsFolder00workflownet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize1net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry1.0100050000net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokesave_results_and_rename_filesEndYearsave_results_and_rename_filesStartYearsave_results_and_rename_filesPopulationsave_results_and_rename_filesresultsFoldersave_results_and_rename_filesIID_OA_Matricessave_results_and_rename_filesIID_S_Matricessave_results_and_rename_filesProjections_of_Pop_Size_OAsave_results_and_rename_filesMean_Matrix_Scenario_OAsave_results_and_rename_filesSD_Matrix_Scenario_OAsave_results_and_rename_filesProjections_of_Pop_Size_Ssave_results_and_rename_filesMean_Matrix_Scenario_Ssave_results_and_rename_filesSD_Matrix_Scenario_Ssave_results_and_rename_filesStockAggrsave_results_and_rename_filesStockAggrOAcreate_zip_FilepathFolderResultszipFileeaf71d98-e7aa-4c2c-8da1-61a6540538542014-09-18 08:31:47.794 UTC6fc9f64c-b1d7-4db0-860d-f96d9bc1e50e2014-09-18 10:12:22.638 UTC0fba2348-4b1d-4b06-a923-80e1d796a6332014-09-18 09:26:37.713 UTCe8da52c6-f368-494e-b010-fe712950d0752014-09-15 10:46:52.995 UTC0599015f-c422-4b5c-947a-41bfc1d7e1692014-09-15 10:40:02.653 UTC028214aa-a2b4-4608-95ab-16fcf319460a2014-09-18 08:56:24.246 UTC50ea4a05-0ccf-41de-8f84-cf60c99ac0962014-09-18 10:12:48.712 UTC1160f631-ac10-4612-bd6e-7f8f39abe8a52014-09-18 08:24:46.971 UTCa3223e77-07bf-42e0-81a1-edd1c71353012014-09-18 10:28:58.537 UTC960680cd-6a97-4c36-bb88-f55a661855672014-09-18 08:22:42.396 UTC0cbf02fb-2b10-4f15-bcc3-bb57208d4ec62014-09-18 10:34:49.458 UTC1d8dabec-4fc3-42c0-b317-a5f88576999d2014-09-18 16:27:35.96 UTC351fa57a-1579-4996-9914-496cfb709a652014-09-18 09:24:26.945 UTCe776da44-4b55-4366-9afc-b88992adb3232014-09-18 09:32:12.571 UTCbab6f4cd-2a1d-40fd-b23d-5781a82b5b3b2014-09-18 08:36:41.641 UTCf6a338ef-212b-4f1d-a0d6-c838b61db9482014-09-18 10:45:29.902 UTC27ba098a-df54-4d42-9ca9-a39ff5c40e0a2014-09-18 09:11:25.862 UTC55874747-5fd5-498b-a52d-814448e8c7fd2014-09-18 10:17:27.341 UTC7edc7ed2-4868-474a-be12-c38124fa36f72014-09-18 09:16:13.519 UTCcb6f468d-bc17-4bbe-8e87-d49e347b673d2014-09-15 10:31:38.150 UTCe02fe129-70ae-41d4-a1a8-5371733d6b2c2014-09-18 08:19:58.510 UTC08863eb6-933d-4f31-b809-f59f7abc8b662014-09-18 10:49:40.790 UTCFishing_Scenarios_foWorkspace00MLT001.642013-11-27 14:27:50.10 UTCMultiplier. In OA is directly proportional to VR; Between 1 and 2 only for increases in OA. FI is an alternative measure of OA and is also directly proportional to VR.
The multiplier MLT can take values from 0.0 to 2.0, with the latter value impling HR=02013-11-27 14:27:50.10 UTCUseFImpacts00FALSE2013-11-27 14:27:50.10 UTCUse Fishery Impacts data and definitions2013-11-27 14:27:50.10 UTCStockAggrOA00YearIntervals22Projections_of_Pop_Size_PDF0IID_OA_Matrices0SD_Matrix_Scenario0Mean_Matrix_Scenario0PrepareTerminalRunRWorkspace0MLT0StockAggrOA0RWorkspace00net.sf.taverna.t2.activitiesrshell-activity1.5net.sf.taverna.t2.activities.rshell.RshellActivityMLT0falseRWorkspace0falseStockAggrOA0falseRWorkspace00falselocalhost6311falsefalseMLTDOUBLERWorkspacePNG_FILEStockAggrOASTRINGRWorkspacePNG_FILEnet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize1net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry1.0100050000net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeFunMatRWorkspace0Years1Mat_IID_OA11net.sf.taverna.t2.activitiesrshell-activity1.5net.sf.taverna.t2.activities.rshell.RshellActivityRWorkspace0falseYears1falseMat_IID_OA11falselocalhost6311falsefalseRWorkspacePNG_FILEYearsINTEGER_LISTMat_IID_OAR_EXPnet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize1net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry1.0100050000net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeConvertListRToRListlist_of_r_expressions2r_list_of_expressions11net.sf.taverna.t2.activitiesdataflow-activity1.5net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize1net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry1.0100050000net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeFinishRWorkspace0RetroMats_pre_OA1UseFImpacts0Projections_of_Pop_Size_PDF00IID_OA_Matrices00SD_Matrix_Scenario00Mean_Matrix_Scenario00net.sf.taverna.t2.activitiesrshell-activity1.5net.sf.taverna.t2.activities.rshell.RshellActivityRWorkspace0falseRetroMats_pre_OA1falseUseFImpacts0falseMean_Matrix_Scenario00Projections_of_Pop_Size_PDF00IID_OA_Matrices00SD_Matrix_Scenario00falselocalhost6311falsefalseRWorkspacePNG_FILERetroMats_pre_OAR_EXPUseFImpactsBOOLMean_Matrix_ScenarioTEXT_FILEProjections_of_Pop_Size_PDFPNG_FILEIID_OA_MatricesTEXT_FILESD_Matrix_ScenarioTEXT_FILEnet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize1net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry1.0100050000net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokePrepareTerminalRunRWorkspacePrepareTerminalRunMLTPrepareTerminalRunStockAggrOAFunMatRWorkspaceFunMatYearsConvertListRToRListlist_of_r_expressionsFinishRWorkspaceFinishRetroMats_pre_OAFinishUseFImpactsProjections_of_Pop_Size_PDFIID_OA_MatricesSD_Matrix_ScenarioMean_Matrix_Scenariob060dc75-d06c-4250-ab5f-53ec37ef9c6b2014-09-19 15:37:51.265 UTC
This workflow simulates fishing scenarios for chinook Ocean Abundance. The user
controls an inverse multiplier for the harvest rate (HR) that affects the stock
aggregates directly. The stock aggregate is user defined from the list of
significant stocks from the multiple regressions (SignifR). See section 2.7
Fishing scenarios for more information.2013-11-27 14:27:50.10 UTCaad96977-4e58-44bc-b407-2b1369adb8532014-09-19 15:17:12.743 UTCFishing Scenarios for Chinook Ocean Abundance2013-11-27 14:27:50.10 UTCL. Antonio Vélez-Espino, H. Andres Araujo and Maria Paula Balcazar-Vargas2013-11-27 14:27:50.10 UTCe95816e4-e41d-42d0-b1f2-502eea2495aa2014-09-19 15:37:23.485 UTCc495da4e-2b9c-464a-af9d-6a56cbba3aac2014-09-19 15:18:59.838 UTC0e3de651-1f66-486c-830a-39c3b6cbbe2e2014-09-19 21:09:58.426 UTC42d2d17e-d231-48ab-a611-51c06d71a21b2014-09-19 15:15:16.896 UTC9e314273-1c9d-435a-a93e-0b51df80f70f2014-08-28 14:09:09.935 UTCe078c5c6-2557-4eb2-adb6-85f6854a8dfb2014-09-19 15:15:26.737 UTC9196a6d0-cd0c-40f3-8b86-4e397c39eb242014-09-19 21:10:48.44 UTC6ed2a2f5-54f3-4343-830a-91b18b095d392014-09-19 15:24:36.586 UTCFishing_Scenarios_TeWorkspace00TRE_R00Terminal Run Equivalent data2013-11-27 14:27:50.10 UTCMult00Multiplier of Ocean HR affecting TR2013-11-27 14:27:50.10 UTC1.52013-11-27 14:27:50.10 UTCTerm_Run_R00Terminal Run2013-11-27 14:27:50.10 UTCER_Indicators_R00Stock Table2013-11-27 14:27:50.10 UTCTRE_HR_R00Terminal Run HR data2013-11-27 14:27:50.10 UTCStockAggr00YearIntervals22SD_Matrix_Scenario0Mean_Matrix_Scenario0Projections_of_Pop_Size_IID0IID_S_Matrices0PrepareTerminalRunRWorkspace0TRE_R0Mult0Term_Run_R0ER_Indicators_R0TRE_HR_R0StockAggr0RWorkspace00net.sf.taverna.t2.activitiesrshell-activity1.5net.sf.taverna.t2.activities.rshell.RshellActivityTRE_R0falseER_Indicators_R0falseTRE_HR_R0falseTerm_Run_R0falseRWorkspace0falseMult0falseStockAggr0falseRWorkspace00falselocalhost6311falsefalseTRE_RTEXT_FILEER_Indicators_RTEXT_FILETRE_HR_RTEXT_FILETerm_Run_RTEXT_FILERWorkspacePNG_FILEMultDOUBLEStockAggrSTRINGRWorkspacePNG_FILEnet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize1net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry1.0100050000net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeFunMatRWorkspace0Years1Mat_IID_S11net.sf.taverna.t2.activitiesrshell-activity1.5net.sf.taverna.t2.activities.rshell.RshellActivityRWorkspace0falseYears1falseMat_IID_S11falselocalhost6311falsefalseRWorkspacePNG_FILEYearsINTEGER_LISTMat_IID_SR_EXPnet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize1net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry1.0100050000net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeConvertListRToRListlist_of_r_expressions2r_list_of_expressions11net.sf.taverna.t2.activitiesdataflow-activity1.5net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize1net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry1.0100050000net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeFinishRWorkspace0RetroMats_pre_S1SD_Matrix_Scenario00Mean_Matrix_Scenario00Projections_of_Pop_Size_IID00IID_S_Matrices00net.sf.taverna.t2.activitiesrshell-activity1.5net.sf.taverna.t2.activities.rshell.RshellActivityRetroMats_pre_S1falseRWorkspace0falseProjections_of_Pop_Size_IID00Mean_Matrix_Scenario00IID_S_Matrices00SD_Matrix_Scenario00falselocalhost6311falsefalseRetroMats_pre_SR_EXPRWorkspacePNG_FILEProjections_of_Pop_Size_IIDPNG_FILEMean_Matrix_ScenarioTEXT_FILEIID_S_MatricesTEXT_FILESD_Matrix_ScenarioTEXT_FILEnet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize1net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry1.0100050000net.sf.taverna.t2.coreworkflowmodel-impl1.5net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokePrepareTerminalRunRWorkspacePrepareTerminalRunTRE_RPrepareTerminalRunMultPrepareTerminalRunTerm_Run_RPrepareTerminalRunER_Indicators_RPrepareTerminalRunTRE_HR_RPrepareTerminalRunStockAggrFunMatRWorkspaceFunMatYearsConvertListRToRListlist_of_r_expressionsFinishRWorkspaceFinishRetroMats_pre_SSD_Matrix_ScenarioMean_Matrix_ScenarioProjections_of_Pop_Size_IIDIID_S_Matrices1e0ff643-3919-4669-a6e3-3e9ca2f319b52014-09-19 15:17:40.397 UTCFishing Scenarios Terminal Run2013-11-27 14:27:50.10 UTCed6c646c-f2d1-4f37-9e5a-496cc43dc6fa2014-08-28 14:09:09.825 UTC804f2782-fcc7-4154-b173-ab0bd7525ad82014-09-19 15:36:29.383 UTCThis workflow simulates fishing scenarios for chinook terminal run. The user controls a multiplier for the harvest rate (HR) that affects the indicator stocks. The stock aggregate is user defined from the list of significant stocks from the multiple regressions (SignifR). See section 2.7 Fishing scenarios for more information.2013-11-27 14:27:50.10 UTCca4d5a89-f254-4274-a229-32e0afd01a952014-09-19 15:17:49.178 UTCd93c4e1f-312d-4fcf-a5b1-1c2866b715c12014-09-19 15:26:44.514 UTCa1669af5-690b-43d8-964f-cadb3146658f2014-09-19 21:10:38.762 UTCL. Antonio Vélez-Espino, H. Andres Araujo and Maria Paula Balcazar-Vargas2013-11-27 14:27:50.10 UTC