From 25fb015655e91a93eced27c02fde12531bca4c8a Mon Sep 17 00:00:00 2001 From: "Win Cowger, PhD" Date: Thu, 13 Jun 2024 15:01:09 -0700 Subject: [PATCH] update links --- DESCRIPTION | 2 +- README.md | 4 ++-- man/OpenSpecy-package.Rd | 2 +- vignettes/sop.Rmd | 6 +++--- 4 files changed, 7 insertions(+), 7 deletions(-) diff --git a/DESCRIPTION b/DESCRIPTION index 6c9c9f19..5ea6ed4b 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -66,7 +66,7 @@ Description: Raman and (FT)IR spectral analysis tool for plastic particles and ) using match_spec(). A Shiny app is available via run_app() or online at . URL: https://github.com/wincowgerDEV/OpenSpecy-package/, - http://wincowger.com/OpenSpecy-package/ + https://wincowger.com/OpenSpecy-package/ BugReports: https://github.com/wincowgerDEV/OpenSpecy-package/issues/ License: CC BY 4.0 Encoding: UTF-8 diff --git a/README.md b/README.md index d6079753..915db634 100644 --- a/README.md +++ b/README.md @@ -9,7 +9,7 @@ Analyze, Process, Identify, and Share Raman and (FT)IR Spectra [![Codecov test coverage](https://codecov.io/gh/wincowgerDEV/OpenSpecy-package/branch/main/graph/badge.svg)](https://app.codecov.io/gh/wincowgerDEV/OpenSpecy-package?branch=main) [![License: CC BY 4.0](https://img.shields.io/badge/license-CC%20BY%204.0-lightgrey.svg)](https://creativecommons.org/licenses/by/4.0/) [![DOI](https://img.shields.io/badge/DOI-10.1021/acs.analchem.1c00123-blue.svg)](https://doi.org/10.1021/acs.analchem.1c00123) -[![Website](https://img.shields.io/badge/web-openspecy.org-white)](https://wincowger.shinyapps.io/OpenSpecy/) +[![Website](https://img.shields.io/badge/web-openspecy.org-white)](https://openanalysis.org/openspecy/) [![Gitter](https://badges.gitter.im/Open-Specy/community.svg)](https://app.gitter.im/#/room/#Open-Specy_community:gitter.im) @@ -57,7 +57,7 @@ run_app() ## Simple workflow for single spectral identification -See [package vignette](http://wincowger.com/OpenSpecy-package/articles/sop.html) +See [package vignette](https://wincowger.com/OpenSpecy-package/articles/sop.html) for a detailed standard operating procedure. ```r diff --git a/man/OpenSpecy-package.Rd b/man/OpenSpecy-package.Rd index 50dead04..44735721 100644 --- a/man/OpenSpecy-package.Rd +++ b/man/OpenSpecy-package.Rd @@ -46,7 +46,7 @@ Background Subtraction Algorithm for Biomedical Raman Spectroscopy.” Useful links: \itemize{ \item \url{https://github.com/wincowgerDEV/OpenSpecy-package/} - \item \url{http://wincowger.com/OpenSpecy-package/} + \item \url{https://wincowger.com/OpenSpecy-package/} \item Report bugs at \url{https://github.com/wincowgerDEV/OpenSpecy-package/issues/} } diff --git a/vignettes/sop.Rmd b/vignettes/sop.Rmd index d57e2bb0..83075ffe 100644 --- a/vignettes/sop.Rmd +++ b/vignettes/sop.Rmd @@ -36,7 +36,7 @@ The Open Specy R package is the backbone of the Shiny app. The choice is yours as to which you start with, we use both on a regular basis. The tutorial will talk through the R functions you can use to programatically analyze spectra. If you are looking for a tutorial about how to use the app see [this -tutorial](http://wincowger.com/OpenSpecy-package/articles/app.html). +tutorial](https://wincowger.com/OpenSpecy-package/articles/app.html). # Installation @@ -52,7 +52,7 @@ To get started with the Open Specy user interface, access [https://openanalysis.org/openspecy/](https://openanalysis.org/openspecy/) or start the Shiny GUI directly from your own computer in R. If you are looking for a tutorial about how to use the app see [this -tutorial](http://wincowger.com/OpenSpecy-package/articles/app.html). +tutorial](https://wincowger.com/OpenSpecy-package/articles/app.html). ```{r, eval=FALSE} run_app() @@ -98,7 +98,7 @@ The specific steps to converting your instrument's native files to .csv can be found in its software manual or you can check out [Spectragryph](https://www.effemm2.de/spectragryph/), which supports many spectral file conversions. For instructions, see [Spectragryph -Tutorial](http://wincowger.com/OpenSpecy-package/articles/spectragryph.html). +Tutorial](https://wincowger.com/OpenSpecy-package/articles/spectragryph.html). If you don't have your own data, you can use a test dataset.