From c8bc943ff72dd8f2390a650eb682b66ca420a43d Mon Sep 17 00:00:00 2001 From: Marie Date: Sat, 20 Jan 2024 20:01:05 -0800 Subject: [PATCH] More help documentation Continued writing general export help. Added new css style Added image --- src/help/pamHelpStylesheet.css | 10 +- .../tethys/docs/images/data_blocks.png | Bin 0 -> 12590 bytes .../tethys/docs/tethys_overview.html | 7 +- .../tethys/docs/tethys_quickstart.html | 158 ++++++++++++++++-- 4 files changed, 157 insertions(+), 18 deletions(-) create mode 100644 src/help/utilities/tethys/docs/images/data_blocks.png diff --git a/src/help/pamHelpStylesheet.css b/src/help/pamHelpStylesheet.css index d2d474b9..6cfd22db 100644 --- a/src/help/pamHelpStylesheet.css +++ b/src/help/pamHelpStylesheet.css @@ -55,6 +55,14 @@ ol { img.wrap {float: left} img.wrapright {float: right} +img.wrapcenter {float: center} + +.center { + display: block; + margin-left: auto; + margin-right: auto; + width: 85%; +} table, th, td { border: 1px solid black; @@ -65,4 +73,4 @@ th, td { } tr { text-align: center; -} \ No newline at end of file +} diff --git a/src/help/utilities/tethys/docs/images/data_blocks.png b/src/help/utilities/tethys/docs/images/data_blocks.png new file mode 100644 index 0000000000000000000000000000000000000000..ee80ccffef224b484b5636260f2b62d0c8283154 GIT binary patch literal 12590 zcmeHuXIv9q+h^1pQHoe-0)nD~N|)YML_`FX5+F1~3%&P}pa@746$m0AD$)rpG^x^s zK&S$tL+DB95JCuS!28~PcAtIU-|l|e5AO#uGiT1sT<4ts^*>i5;+d8jBOM1F003ZA zfBaAf0HA>Y04M0roTj#v8Au3I4<|fy)E)o|&|FK@i@zZEHSYre#j*7JU>fT6S=Yx# z9st0File_1pDc9+sEw9(dWN35&UUVv)}CN1uqT+>1^@)`S~}XfK69~i_VnPDGY;VO z<&_f^TtiHXaI|L+^_O3D1)=g$*I*QPmAo2)`L}BEGL9{&6Hw@5@Qoh#R!V1_cOrK5+@!OYgK+ zbv~y!os9lfg)i@TZz73&Ike#~Ni<78A;EDEyYMA^cHw$O#KHC+ZE*N%AbA^?jzXbu z$3yygpK|Mv?dUZ4l-%B06H{5r(WC%mM8`Rfj(~xCD5IleFo&%y{n5#@Q%rxIIy%XI zIV*T{yvKM0BCg#SB0YK5JTN&HIAVoy(s!~PBJfxoo}k_j)*pO|&U`(QJl!?3hGqjx z)f1g|XHr%B+i*&63T+hq-eq?4(bZFCQdvg*j2^!_dGu10Q;++O^X^tM%GFPnqwWV$ zqK5qCoik-e-IpWr2YKJlw?y4w5>8%RBcH_)hKFtZt7Z9dKzyW#YGx_8`q?&#Bi znws*J!6^cn*f_p0sRb&7l4tGC5TTc#n|5ck7fNz`nzGU+n6&Fs%3pQC54ZYVm3g$= zN6Z6R_=7fW<%FsZ7m3rzivB!zje(inK-7fYgpB!0JKJ=s<3uHmi(4uQSc`-URXbMa zu(*L%{C1bed*yzUE1TnJ6@pVk6qO|J=BOD~pR$k%jcO=;h^Kvb; 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Tethys Interface

Overview

-

- Tethys mosaic -

+
+ Tethys mosaic

Tethys is a freely diff --git a/src/help/utilities/tethys/docs/tethys_quickstart.html b/src/help/utilities/tethys/docs/tethys_quickstart.html index fd7543e7..ed6fb72b 100644 --- a/src/help/utilities/tethys/docs/tethys_quickstart.html +++ b/src/help/utilities/tethys/docs/tethys_quickstart.html @@ -255,21 +255,151 @@

Deployments

-

PAMGuard will have done it's best to work out the temporal extent of your data by looking in the - PAMGuard database and - binary Store. Where data were collected on a regular duty - cycle, or continuously, there should be a single record in the table of recording periods. If data were collected on a more - "ad-hoc" basis, for instance during a boat-based survey, there might be many different records in the table. - Occasionally, there may be short recording periods (e.g. while you were testing kit on deck) that you don't want to export. Either select - individual rows that you want to export, or right click on the table and "Select All".

- -

Press the "Export..." button and work through the questions to provide additional information about your data, why it was collected, etc.

-

Once the document(s) have been exported, the document names will be shown alongside each PAMGuard deployment period

-
+ +

+ Tethys uses deployment records to register information about + when instruments have been deployed as well as their + characteristics. Examples of characteristics that are recorded + include sample rate and the number of quantization bits, + description of duty cycles (if applicable), hydrophone geometry, + and enough details to be able find calibration data for specific + hydrophones. +

+ +

+ PAMGuard will examine the + PAMGuard + database + and + binary Store to determine what records should be generated for + your instrumentation. +

-

Detections

-

The bottom left panel shows a list of different types of PAMGuard data that can be exported and should also show the total numbers of each type of data that are available - within the PAMGuard storage systems. Select the datablock you want to export from and press "Export...".

+

+ Where data were collected continuously or on a regular duty + cycle, PAMGuard will create a single deployment record. If data + were collected on a more "ad-hoc" basis, where the instrument has + been deployed multiple times or has irregular recording, PAMGuard + will generate a deployment record for each period of recording. +

+ +

+ The figure below shows an example of ad-hoc recording periods + identified by PAMGuard: +

+
+ +

+ Occasionally, there may be short recording periods (e.g. while + you were testing kit on deck) that you do not want to export. Use + the select checkbox to pick all of the rows that you wish to + export, or right click on the table and "Select All." +

+ +

+ When one or more deployment records are selected, the + "Export..." button will become available. Selecting the export + button will start a dialog that asks for additional information + about the deployments and then write records to Tethys. +

+

+ The first page of the dialog asks for the project and geographic + region which will be automatically populated if they have been + previously specified. In addition, the following fields are + requested: +

+
    +
  • Cruise name - Optional name of the deployment cruise
    • +
  • Site - Case-sensitive name for the deployment site, + e.g. "Tanner Banks" or a letter designation "T". This can + provide a simple way to identify multiple deployments at the + same general location. +
    • +
  • Responsible Party - A set of fields describing who was + responsible for the deployment and how they may be + contacted. +
    • +
+ +

+ The next page of the dialog asks whether you would like to + export a single deployment document or multiple deployments. + todo: add more detail here +

+ + +

+ Finally, you are prompted to provide optional textual descriptions of: +

    +
  • Objectives - What were your objectives when deploying the + instrument? Example: Determine population estimates for + critically endangered populations of vaquita (Phocoena + sinus). +
    • +
  • Abstract - A textual description of the deployment. + Example: A set of high frequency recorders were deployed across the + northern portion of the Sea of Cortez in the historical range + of the vaquita (Phocoena sinus). These recordings will + support detection and density estimation efforts. +
    • +
  • + Method - A description of the methods used. Example: + Small boat deployment of bottom moored SoundTrap recorders + with acoustic releases. +
    • +
+ + Press Finish to export the records. Once the + document(s) have been successuflly exported, the document name + associated with each recording period will be shown in the + Tethys Deployment column. +

+ +

PAMGuard data blocks

+ +

+ The bottom left panel shows a list of different types of + PAMGuard data that can be exported. The data in this list + correspond to the various PAMGuard modules that have been + configured. See the + + data model viewer + help for an example of how PAMGuard might be configured. +

+ +

+ In the sample data blocks image below, four modules have been + configured, but only one of them has been run. Column "N Pam + Data" indicates the number of data records that have been + produced, and "PAMGuard Time" tells us when the data were + processed. "Tethys Documents" indicates how many Tethys records + have been produced, and should be 0 until the data are exported. +

+ + +
+ +
+ + Select the data blocks to be exported by clicking on them. + Multiple lines can be selected by using keyboard modifiers such as + holding the shift while clicking to select all data blocks between + the last clicked block and where you click. Holding the alternate + (ALT) key will allow selection or de-selection of a single item + without affecting the selection state of other blocks. + + + SUGGESTION: It looks like we have to highlight these by clicking + on them. As we use select boxes for recording periods, we might + want to do the same thing here... We might want to rename + N PAM Datas to N PAM Data as data are already plural. + +

+ + and should also show the total + numbers of each type of data that are available within the + PAMGuard storage systems. Select the datablock you want to export + from and press "Export...".

You really don't want to try to export zillions of data to Tethys , in the options that will appear you can opt to just export certain types of detections or summary counts.