Closed bsnouffer closed 4 years ago
Jason and I have relooked at this and come up with way to consolidate these. It involves a slight tweak to use more understandable terms. Jason: "I think the real distinction is whether the survey is opportunistic-- such as one that uses fishery-dependent information to try and come up with an index-- vs. a scientifically designed (usually fishery-independent) survey. What can get confusing in the fishery-dependent vs independent comparison is when fishing vessels are hired to do a scientific design. I consider that a scientific survey, not a fishery-independent survey, but people could answer the question that it is a CPUE survey because it came from fishers."
(current questions below)
What time series exists of scientifically designed (e.g., fishery-independent) surveys of relative or absolute abundance? This question refers to scientifically designed data collection programs of or surveys of abundance, regardless of whether scientists or fishers collect the data. “Relative abundance” measures only a subset of the population, and is often linked to an effort or area measure (e.g., #/m^2). “Absolute abundance” assumes a total estimate of all animals for the assessed population (in numbers or biomass).
0: Absent 1: Snapshots/intermittent/inconsistent reporting 2: Partial time series that does not cover major or peak years of removals 3: Partial time series that cover major/peak years of removals 4: Full time series since fishing began
What time series exists of opportunistic (e.g., fishery-dependent) abundance indices? This refers to data collected without the initial intent of measuring abundance. A common example is catch-per-unit-effort (CPUE) information based on data collected from the fishery then standardized to represent abundance.
0: Absent 1: Snapshots/intermittent/inconsistent reporting 2: Partial time series that does not cover major or peak years of removals 3: Partial time series that cover major/peak years of removals 4: Full time series since fishing began
Criteria: The current questions are only used for criteria and always together as a group in multiple "or" criteria groups (318, 3356, 3358, 323). Questions would stay in all the same multiple "or" criteria groups that they currently are in, only adjustment would be that there are two abundance time series questions instead of three. The one exception is that the current fishery-independent question is a criteria for Ecosystem Threshold Analysis. The scientific design question will be the new criteria for that option.
For inputting the questions into FishPath: About 3/4 of the fishery questionnaires have different answers for the current two fishery-dependent questions (263, 275). Given that, I propose deleting both questions and inputting the opportunistic (fishery-dependent) question as a new question. This will force users to answer it under the new definition and avoid us having to choose between which fishery-dependent question to keep. Deleting the old fishery-independent question (281) and inputting the scientifically designed question as a new question would also make sense, as some of the time series that would previously have fallen under 275 (other fishery-dependent data) now would fit here. However, these all 3 current questions are grouped wherever they are used as criteria (except for Ecosystem Threshold Analysis) so it would likely not make a big impact on the results shown.
263: What time series exists of catch-per-unit-effort data? This question refers to any measure of catch (e.g., numbers, biomass) by effort (e.g., time fished), and can be used to measure density or relative abundance.
0: Absent 1: Snapshots/intermittent/inconsistent reporting 2: Partial time series that does not cover major or peak years of removals 3: Partial time series that cover major/peak years of removals 4: Full time series since fishing began
275: Is there a fishery-dependent time series, in addition to, or instead of, catch-per-unit-effort, CPUE, of relative or absolute abundance data? This refers to data collected by fishers that use their own gear and/or vessel in the absence of a scientifically designed data collection program. “Relative abundance” expresses abundance as some percentage of a reference value, usually the unfished abundance. “Absolute abundance” expresses abundance in terms of numbers or kilograms, or a density. As an example, scallop fishers may conduct their own, approved, pre-season survey of known scallop beds, to ascertain their condition and identify where their efforts will be dedicated during the fishing season.
0: Absent 1: Snapshots/intermittent/inconsistent reporting 2: Partial time series that does not cover major or peak years of removals 3: Partial time series that cover major/peak years of removals 4: Full time series since fishing began
281: What time series exists of fishery-independent relative or absolute abundance data? This question refers to scientifically designed data collection programs (it does not matter who undertakes the sampling). “Relative abundance” measures only a subset of the population, and is often linked to an effort or area measure. “Absolute abundance” assumes a total estimate of all animals for the assessed population (in numbers or biomass).
0: Absent 1: Snapshots/intermittent/inconsistent reporting 2: Partial time series that does not cover major or peak years of removals 3: Partial time series that cover major/peak years of removals 4: Full time series since fishing began
When making this update, I also propose to move the static caveats regarding the use of CPUE data listed in #267 to be triggered off the new "opportunistic (e.g., fishery-dependent) abundance indices" question (as originally suggested by Natalie). This way, they will only show up if there is CPUE data available to the fishery.
sounds good!
On Mon, Aug 31, 2020 at 11:26 AM Brian Snouffer notifications@github.com wrote:
When making this update, I also propose to move the static caveats regarding the use of CPUE data listed in #267 https://github.com/shcaba/FishPath-updates/issues/267 to be triggered off the new "opportunistic (e.g., fishery-dependent) abundance indices" question (as originally suggested by Natalie). This way, they will only show up if there is CPUE data available to the fishery.
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Jason M. Cope, Ph.D.Research Fishery Biologist Fishery Resource Analysis and Monitoring Division Northwest Fisheries Science Center 2725 Montlake Blvd. East
Seattle, WA 98112-2013 NOAA Fisheries
jason.cope@noaa.gov email@noaa.gov206.302.2417www.nmfs.noaa.gov http://www.nmfs.noaa.gov/
all this looks good to me. thanks for being so thorough!
I encountered a number of bugs while trying to input this. They are all surrounding editing 'satisfied by' questions. One issue was noted in #354. I will document the others in another issue. Point being, I was able to make these updates, but instead of creating new questions as planned, I had to edit the current questions. This causes the meaning of the questions to change silently for the users and might affect their results, without them knowing or knowing why.
Please let me know if FishPath does not load for any reason. I tested making these changed in a test environment and when not performing the actions in a specific order, it caused the tool to crash. I have been able to make some work arounds in the code that I can use to recover from if needed.
This came up when updating the wording to answers to the time-series data questions (in issue #168).
We had planned on removing the CPUE question as redundant with the fishery dependent survey question. However, in the meantime the fishery dependent survey question was updated to "Is there a fishery-dependent time series, in addition to, or instead of, catch-per-unit-effort, CPUE, of relative or absolute abundance data?" However both trigger the same criteria in all cases (they are only found in "OR" criteria) making one of them redundant. Jason has proposed combining them into one question as proposed above. Change fishery-dependent wording to: "What time series exists of fishery-dependent (e.g., catch-per-unit-effort or area) abundance data? This refers to data collected by fishers that use their own gear and/or vessel in the absence of a scientifically designed data collection program.