Updated for the new save format.

docs/ta-dump.md

@@ -2,17 +2,17 @@
 
 `ta_dump.py` is a plotting script that shows TA diagnostic information, such as: algorithms produced, number of TPs per TA, event displays, ADC integral histogram, and a plot of the time starts.
 
-A new directory is created that identifies the HDF5 file the script was run on and increments based on preceding plots for the same file. One can overwrite the first set of plots generated by using `--overwrite`. Plots are saved in two multi-page PDFs: histograms for member data and event displays.
+A new save name is found that identifies the HDF5 file the script was run on and increments based on preceding plots for the same file. One can overwrite the first set of plots generated by using `--overwrite`. Plots are saved in two multi-page PDFs: 1) member data histograms and light analysis plots and 2) event displays.
 
 There are two plotting options `--linear` and `--log` that set the y-scale for the plots. By default, plots use both scales with linear on the left y-axis and log on the right y-axis. There is an additional plotting option `--seconds` to produce time plots using seconds instead of ticks.
 
 While running, this can print information about the file reading using `-v` (warnings) and `-vv` (all). Errors and useful output information (save names and location) are always outputted.
 
-One can specify which fragments to _attempt_ to load from with the `--start-frag` option. This is `-10` by default in order to get the last 10 fragments for the given file. One can also specify which fragment to end on (not inclusive) with `--end-frag` option. This is `0` by default (for the previously mentioned reason).
+One can specify which fragments to _attempt_ to load from with the `--start-frag` option. This is `-10` by default in order to get the last 10 fragments for the given file. One can also specify which fragment to end on (not inclusive) with `--end-frag` option. This is `N` by default (for the previously mentioned reason).
 
 Event displays are processed by default. If there are many TAs that were loaded, then this may take a while to plot. The `--no-display` options skips event display plotting.
 
-A text file named `ta_anomalies.txt` is generated that gives reference statistics for each TA data member and gives a count of data members that are at least 2 sigma and 3 sigma from the mean. One can use `--no-anomaly` to stop this file generation.
+A text file is generated that gives reference statistics for each TA data member and gives a count of data members that are at least 2 sigma and 3 sigma from the mean. One can use `--no-anomaly` to stop this file generation.
 
 ## Example
 ```bash

docs/tc-dump.md

@@ -1,13 +1,15 @@
 # Trigger Candidate Dump Info
-`tc_dump.py` is a plotting script that shows TC diagnostic information. This includes histograms of all the available data members and ADC integral (sum of all contained TA ADC integrals) and a few light analysis plots:time difference histogram (various start and end time definitions), ADC integral vs number of TAs scatter plot, time spans per TC plot (including a calculation for the number of ticks per TC). These plots are written to a single PDF with multiple pages.
+`tc_dump.py` is a plotting script that shows TC diagnostic information. This includes histograms of all the available data members and ADC integral (sum of all contained TA ADC integrals) and a few light analysis plots: time difference histogram (various start and end time definitions), ADC integral vs number of TAs scatter plot, time spans per TC plot (including a calculation for the number of ticks per TC). These plots are written to a single PDF with multiple pages.
+
+By default, a new PDF is generated (with naming based on the existing PDFs). One can pass `--overwrite` to overwrite the 0th PDF for a given HDF5 file.
 
 There are two plotting options `--linear` and `--log` that set the y-scale for the plots. By default, plots use both scales with linear on the left y-axis and log on the right y-axis. There is an additional plotting option `--seconds` to produce time plots using seconds instead of ticks.
 
 While running, this can print information about the file reading using `-v` (warnings) and `-vv` (all). Errors and useful output information (save names and location) are always outputted.
 
-One can specify which fragments to _attempt_ to load from with the `--start-frag` option. This is `-10` by default in order to get the last 10 fragments for the given file. One can also specify which fragment to end on (not inclusive) with `--end-frag` option. This is `0` by default (for the previously mentioned reason).
+One can specify which fragments to _attempt_ to load from with the `--start-frag` option. This is `-10` by default in order to get the last 10 fragments for the given file. One can also specify which fragment to end on (not inclusive) with `--end-frag` option. This is `N` by default (for the previously mentioned reason).
 
-A text file named `tc_anomalies_<run_number>-<file_index>.txt` is generated that gives reference statistics for each TA data member and gives a count of data members that are at least 2 sigma and 3 sigma from the mean. One can use `--no-anomaly` to stop this file generation.
+A text file is generated that gives reference statistics for each TA data member and gives a count of data members that are at least 2 sigma and 3 sigma from the mean. One can use `--no-anomaly` to stop this file generation.
 
 ## Example
 ```bash
@@ -20,4 +22,5 @@ python tc_dump.py file.hdf5 --no-anomaly
 python tc_dump.py file.hdf5 --log
 python tc_dump.py file.hdf5 --linear
 python tc_dump.py file.hdf5 --seconds
+python tc_dump.py file.hdf5 --overwrite
 ```

docs/tp-dump.md

@@ -2,15 +2,15 @@
 
 `tp_dump.py` is a plotting script that shows TP diagnostic information, such as: TP channel histogram and channel vs time over threshold. Plots are saved as SVGs, PDFs, and PNGs.
 
-A new directory is created that identifies the HDF5 file the script was run on and increments based on preceding plots for the same file. One can overwrite the first set of plots generated by using `--overwrite`.
+A new save name is found that identifies the HDF5 file the script was run on and increments based on preceding plots for the same file. One can overwrite the first set of plots generated by using `--overwrite`.
 
 There are two plotting options `--linear` and `--log` that set the y-scale for the plots. By default, plots use both scales with linear on the left y-axis and log on the right y-axis. There is an additional plotting option `--seconds` to produce time plots using seconds instead of ticks.
 
 While running, this can print information about the file reading using `-v` (warnings) and `-vv` (all). Errors and useful output information (save names and location) are always outputted.
 
-One can specify which fragments to load from with the `--start-frag` option. This is -10 by default in order to get the last 10 fragments for the given file. One can also specify which fragment to end on (not inclusive) with `--end-frag` option. This is 0 by default (for the previously mentioned reason).
+One can specify which fragments to load from with the `--start-frag` option. This is -10 by default in order to get the last 10 fragments for the given file. One can also specify which fragment to end on (not inclusive) with `--end-frag` option. This is N by default (for the previously mentioned reason).
 
-A text file named `tp_anomaly_summary.txt` is generated that gives reference statistics for each TP data member and gives a count of data members that are at least 2 sigma and 3 sigma from the mean. One can use `--no-anomaly` to stop this file generation.
+A text file is generated that gives reference statistics for each TP data member and gives a count of data members that are at least 2 sigma and 3 sigma from the mean. One can use `--no-anomaly` to stop this file generation.
 
 ## Example
 ```bash