From fe9bfbc1ad0ef6f5f1a940058aad4723adbbf400 Mon Sep 17 00:00:00 2001
From: Cesaire Joris Kuete Fouodo <fouodo@imbs.uni-luebeck.de>
Date: Tue, 26 Nov 2024 20:50:18 +0100
Subject: [PATCH] Fix testing issues

---
 .covrignore    |   4 ++--
 R/.DS_Store    | Bin 6148 -> 6148 bytes
 man/Testing.Rd |  16 +++++++++++++++-
 3 files changed, 17 insertions(+), 3 deletions(-)

diff --git a/.covrignore b/.covrignore
index 445e946..6b63aeb 100644
--- a/.covrignore
+++ b/.covrignore
@@ -1,8 +1,8 @@
-./R/entities.R
+./R/multi_omics.R
 ./R/TestMetaLayer.R
 ./R/PredictData.R
 ./R/PredictLayer.R
 ./R/PredictMetaLayer.R
 ./R/Predicting.R
 ./R/trainingFunctions.R
-./R/testingFunctions.R
\ No newline at end of file
+./R/testingFunctions.R
diff --git a/R/.DS_Store b/R/.DS_Store
index c6581a2d31a60f8d94d5615dcac653531b863ecc..410f93d3a8d68cda1e11727c0f79f8be6f2bb351 100644
GIT binary patch
delta 223
zcmZXOJqp4=5QV>p7&|TW8g2@YU?apIBHH^C3sDl1-NMQy2M}@y>yYyazGx#_ykYiz
zZ)T?mir~H&wg3<MaA8E0+Fj`Kvhp5fFlgU=mTbwSFKRQ*j9GCd#}bPfHYA*J>SMWv
ziDs;1SnC~YN8=uqa?(LEq;eBZqI+dO+`ZE?LLyAi6n*x8#@yxaGk!>2dDBkqcb~l%
DnO-i3

delta 199
zcmZoMXfc@JFUrEez`)4BAi%&-z>vd`%21q>ZWuiIAmj3SkPHV<q=F%lAs1OTIX|}m
zC<g*+K#ZX#H{Zo2DJMS(B)39ol2p9tF-Pp`Qt+sgL|9soVHk|CRABQ#MmM&J4RV{=
IIsWnk0IMG?&Hw-a

diff --git a/man/Testing.Rd b/man/Testing.Rd
index 9c9cfe3..e8080a3 100644
--- a/man/Testing.Rd
+++ b/man/Testing.Rd
@@ -27,6 +27,7 @@ A Testing object is structured as followed:
 \item \href{#method-Testing-getIndIDs}{\code{Testing$getIndIDs()}}
 \item \href{#method-Testing-getTestMetaLayer}{\code{Testing$getTestMetaLayer()}}
 \item \href{#method-Testing-getIndCol}{\code{Testing$getIndCol()}}
+\item \href{#method-Testing-getVerbose}{\code{Testing$getVerbose()}}
 \item \href{#method-Testing-upset}{\code{Testing$upset()}}
 \item \href{#method-Testing-summary}{\code{Testing$summary()}}
 }
@@ -50,7 +51,7 @@ A Testing object is structured as followed:
 \subsection{Method \code{new()}}{
 constructor
 \subsection{Usage}{
-\if{html}{\out{<div class="r">}}\preformatted{Testing$new(id, ind_col)}\if{html}{\out{</div>}}
+\if{html}{\out{<div class="r">}}\preformatted{Testing$new(id, ind_col, verbose = TRUE)}\if{html}{\out{</div>}}
 }
 
 \subsection{Arguments}{
@@ -61,6 +62,9 @@ Testing id.}
 
 \item{\code{ind_col}}{(\code{character(1)})
 Name of column of individuals IDS in testing data.frame.}
+
+\item{\code{verbose}}{(\code{boolean}) \cr
+Warning messages will be displayed if set to TRUE.}
 }
 \if{html}{\out{</div>}}
 }
@@ -117,6 +121,16 @@ Getter of the individual column name.
 \if{html}{\out{<div class="r">}}\preformatted{Testing$getIndCol()}\if{html}{\out{</div>}}
 }
 
+}
+\if{html}{\out{<hr>}}
+\if{html}{\out{<a id="method-Testing-getVerbose"></a>}}
+\if{latex}{\out{\hypertarget{method-Testing-getVerbose}{}}}
+\subsection{Method \code{getVerbose()}}{
+Getter of the verbose setting.
+\subsection{Usage}{
+\if{html}{\out{<div class="r">}}\preformatted{Testing$getVerbose()}\if{html}{\out{</div>}}
+}
+
 }
 \if{html}{\out{<hr>}}
 \if{html}{\out{<a id="method-Testing-upset"></a>}}