cleanup docs after tidying repo

Author: nashjc

DerivsNLS.Rmd

@@ -428,7 +428,7 @@ continuing effort to bring them into other R tools.
 The following example shows that numericDeriv() does a reasonable job of computing
 the Jacobian, but the result is still singular.
 
-```{r code=xfun::read_utf8('badJlogmod.R')}
+```{r code=xfun::read_utf8('Tests/Examples/badJlogmod.R')}
 ```
 
 
@@ -439,14 +439,14 @@ This code is in two files, nls.R and nls.c and is extracted here.
 ## From nls.R
 
 ```{r nlsR, comment=NA, echo=FALSE}
-   cat(readLines('./nls-numericDeriv.R'), sep = '\n')
+   cat(readLines('archived/nls-numericDeriv.R'), sep = '\n')
 ```
 
 
 ## From nls.c
 
 ```{r nlsc, comment=NA, echo=FALSE}
-   cat(readLines('./nls-numericDeriv.c'), sep = '\n')
+   cat(readLines('archived/nls-numericDeriv.c'), sep = '\n')
 ```
 
 # Appendix 2: numericDeriv() from nlsalt package (all in R)

DerivsNLS.pdf

@@ -634,7 +634,7 @@ Hobbs weed problem.
 ??FIXME??
 
 ```{r hobbtime1}
-source("HobbsTiming.R", echo=TRUE)
+source("Tests/Examples/HobbsTiming.R", echo=TRUE)
 ```
 
 

MachineSummary.pdf

@@ -119,6 +119,21 @@ Here is an annotated listing of product of the project.
 
 * In reverse date order *
 
+[2021-07-25 - 2021-07-26] 
+
+- AB: Got a working workaround function to resolve RAM
+  issue for Windows (probably; Machine ID is now machine dependent. Need to
+  make it robust??). Started "runner_v2" to compare various NLS methods.
+  Observed that "plinear" created an error `"Error in nls(formula =
+  NLSformula, data = NLSdata, start = NLSstart, algorithm =
+  NLSmethods$algorithm[j]) :
+  step factor 0.000488281 reduced below 'minFactor' of 0.000976562"`.
+
+  There is an issue with "control" in "methods.csv" file. Trying to resolve it.
+  Spreadsheet is running successfully, but with default options only. Should
+  column names be extended??
+
+
 ### [2021-7-25] 
 
 - JN: continued work on nlsj to check features working. Some rewrite of sections