version 1.0.4

ChangeLog

@@ -1,48 +1,138 @@
 monitoR
-#########################################
-##  SUMMARY OF CHANGES AFFECTING USERS ##
-#########################################
-2015 APRIL 23
-Version 1.0.3
-* Added hours.offset argument to fileCopyRename() for manual override of 
-timezone management.
+2015 September 18 Sasha D. Hafner
+Version 1.0.4
 
-* Global time-zone detection in binMatch() and corMatch() when time.source="filename".
+*NAMESPACE
+Added cutWave to export()
 
-* Streamlined database functions; most query arguments are now optional.
+*cutWave.Rd
+Switched cutw to cutWave in example.
 
-* Added write.wav argument to makeCorTemplate(), makeBinTemplate(),
-corMatch(), and binMatch. If a Wave object is used for the first argument 
-(clip or survey), these function no longer automatically write the object to file 
-(but will do so if write.wav=TRUE). 
+2015 September 17 Sasha D. Hafner
+Version 1.0.4
 
-* makeBinTemplate() New behavior for dens argument: points are now randomly 
-sampled, and repeated selection of an area increases the density. 
+*makeBinTemplate.R, makeCorTemplate.R
+Used 'if' construct to return appropriate message for ending interactive
+graphical input (or moving onto the next input) depending on whether .Device
+is X11 or not. Original message always was "...right click".
 
-* New function templatePath() for extracting or replacing the paths for Wave 
-files.
+2015 September 17 Jon Katz
+Version 1.0.4
+*binMatch.R, corMatch.R, fileCopyRename.R
+Added optional argument rec.tz to allow manual specification of the timezone
+in which a survey was recorded. This change was originally made in April 2015
+for version 1.0.3.
 
-* Added option to plot template over detections using argument box="template" 
-in showPeaks().
+2015 September 12 Sasha D. Hafner
+Version 1.0.4
 
-2014 MAY 15
-Version 1.0.2
-* Minor bug fixes.
+*monitoR_QucikStart.Rnw
+Added spaces to R code.
 
-2014 MARCH 28
-Version 1.0.1
-* seewave and its dependencies no longer required for installation of monitoR.
+2015 September 7 Sasha D. Hafner
+Version 1.0.4
 
-2014 MARCH 27
-Version 1.0.0
-Initial upload to CRAN.
+*dbDownloadCardRecorderID.R, dbDownloadTemplate.R, dbUploadResult.R,
+dbDownloadResult.R, dbSchema.R, dbUploadSurvey.R, dbDownloadSurvey.R,
+dbUploadAnno.R, dbUploadTemplate.R
+Fixed indentation of usage lines, plus other small changes.
+
+
+2015 September 6 Sasha D. Hafner
+Version 1.0.4
+
+*dbDownloadCardRecorderID.R, dbDownloadTemplate.R, dbUploadResult.R,
+dbDownloadResult.R, dbSchema.R, dbUploadSurvey.R, dbDownloadSurvey.R,
+dbUploadAnno.R, dbUploadTemplate.R
+Added check at start of functions to make sure RODBC package is installed.
+
+*dbDownloadResults.R, fileCopyRename.R, getClip.R, Methods-plot.R, viewSpec.R
+Added tuneR:: to all readWave() calls.
+
+*viewSpec.R
+Added tuneR:: to all channel() calls.
+
+*getClip.R, showPeaks.R, viewSpec.R
+Added tuneR:: to all writeWave() calls.
+
+*collapseClips.R
+Added tuneR:: to bind() call.
+
+*templateComment.R, templateCutoff.R, templateNames.R, templatePath.R
+Removed space before <- in, e.g., templatePath<-, that had been added by a
+Perl command earlier.
+
+*templateComment.Rd, templateCutoff.Rd, templateNames.Rd, templatePath.Rd
+Removed space before <- in, e.g., \alias{templatePath<-}, that had been added by a
+Perl command earlier.
+
+*index-methods.Rd, plot-methods.Rd, show-methods.Rd
+Removed space after comma in, e.g., \alias{[,templateScores-method}, added
+earlier by Perl command.
+
+*Methods-plot.R
+Replaced 'ext' with 'file.ext' in error message on line 29.
+
+*monitoR_QuickStart.Rnw
+Changed reference to cutw to cutWave.
+
+*binMatch.R, corMatch.R
+Removed space in {1, 7}, apparently added by Perl command earlier.
+
+*dbSchema.Rd, mp3Subsamp.Rd, readMP3.Rd
+Removed space added around = in URL.
+
+*NAMESPACE
+Added "image" and "plot" to importFrom for graphics package. Only saw a NOTE
+on this after removing tuneR import from file as a test.
+Switch to importFrom for tuneR functions.
+
+*NAMESPACE
+(This change made a month or two ago)
+Added import and importFrom directives for all non-base package functions. 
+
+2015 August 8 Sasha D. Hafner
+Version 1.0.4
+
+*collapseClips.R, makeBinTemplate.R, makeCorTemplate.R, Methods-plot.R,
+showPeaks.R, viewSpec.R
+Replaced calls to cutw() with calls to cutWave() using Perl.
+
+
+2015 August 1 Sasha D. Hafner
+Version 1.0.4
+
+*cutWave.R 
+New name for old cutw() function.
+
+*cutw.R 
+Added call to .Deprecated. The cutw() function will be removed in
+the future.
+
+*All Rd files 
+Added spaces to examples to make them easier to read. Fixed
+typos.
+
+2015 July 21 Sasha D. Hafner
+Version 1.0.4
+
+All R files Added spaces around <-, after commas, and around =, ==, and !=
+using Perl.
+
+2015 MAY 15 Jon Katz
+Version 1.0.4
+
+*viewSpec.Rd and showPeaks.Rd Details regarding the player argument updated to instruct 
+on correct Windows syntax with tempfiles.
 
+* showPeaks.R Fixed bug identifying when there are no hits to show, originally
+failed when 1 hit is present. Changed fd.rat default from 2 to 4.
 
+* getPeaks.R/getDetections.R Added return of an empty data frame when no
+peaks/detections are present.
 
+* dbDownloadSurvey.R dropped first AND operator included in SQL query
 
-####################
-##  DETAILED LOG  ##
-####################
 2015 APRIL 22 Sasha Hafner and Jon Katz
 Version 1.0.3
 *fileCopyRename.R/Rd New argument hours.offset allows user to manually offset the modification date to transport recordings across time zones. 

DESCRIPTION

@@ -1,17 +1,18 @@
 Package: monitoR
 Type: Package
 Title: Acoustic Template Detection in R
-Version: 1.0.3
-Date: 2015-04-23
-Author: Sasha D. Hafner <sdh11@cornell.edu> and Jon Katz <jonkatz4@gmail.com>, with code for the Fourier transform from the seewave package (by Jerome Sueur, Thierry Aubin, and Caroline Simonis), and code for the readMP3 function from the tuneR package (by Uwe Ligges).
+Version: 1.0.4
+Date: 2015-09-18
+Author: Sasha D. Hafner <sdh11@cornell.edu> and Jon Katz <jonkatz4@gmail.com>, with code for the Fourier transform from the seewave package (by Jerome Sueur, Thierry Aubin, and Caroline Simonis), and code for the readMP3 function from the tuneR package (by Uwe Ligges). Therese Donovan provided creative direction and database design support. 
 Maintainer: Sasha D. Hafner <sdh11@cornell.edu>
 Depends: R (>= 2.10), tuneR, methods
+Imports: graphics, grDevices, stats, utils
 Suggests: fftw, parallel, RODBC, knitr
 Description: Acoustic template detection and monitoring database interface. Create, modify, save, and use templates for detection of animal vocalizations. View, verify, and extract results. Upload a MySQL schema to a existing instance, manage survey metadata, write and read templates and detections locally or to the database. 
 License: GPL-2
 URL: http://www.uvm.edu/rsenr/vtcfwru/R/?Page=monitoR/monitoR.htm
 VignetteBuilder: knitr
 NeedsCompilation: no
-Packaged: 2015-04-23 11:37:36 UTC; sasha
+Packaged: 2015-09-18 09:48:58 UTC; sasha
 Repository: CRAN
-Date/Publication: 2015-04-23 16:49:23
+Date/Publication: 2015-09-18 13:36:02