From be2dbd02b26e8de11d9b51fb922595e16552e948 Mon Sep 17 00:00:00 2001
From: Waldir Leoncio <w.l.netto@medisin.uio.no>
Date: Fri, 3 Sep 2021 12:56:00 +0200
Subject: [PATCH] Dependency fixes

---
 DESCRIPTION   | 3 +--
 NAMESPACE     | 1 +
 R/greedyMix.R | 1 +
 3 files changed, 3 insertions(+), 2 deletions(-)

diff --git a/DESCRIPTION b/DESCRIPTION
index 7bfff51..f91aa25 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -36,9 +36,8 @@ Description: Partial R implementation of the BAPS software
 License: GPL-3
 BugReports: https://github.com/ocbe-uio/rBAPS/issues
 Encoding: UTF-8
-LazyData: true
 RoxygenNote: 7.1.1
 Suggests:
     testthat (>= 2.1.0)
 Imports:
-    methods, ape, vcfR
+    methods, ape, vcfR, Rsamtools
diff --git a/NAMESPACE b/NAMESPACE
index 8bb2029..05595f3 100644
--- a/NAMESPACE
+++ b/NAMESPACE
@@ -50,6 +50,7 @@ export(uigetfile)
 export(uiputfile)
 export(writeMixtureInfo)
 import(utils)
+importFrom(Rsamtools,scanBam)
 importFrom(ape,as.DNAbin)
 importFrom(ape,read.FASTA)
 importFrom(methods,is)
diff --git a/R/greedyMix.R b/R/greedyMix.R
index 2e2b552..a0d7194 100644
--- a/R/greedyMix.R
+++ b/R/greedyMix.R
@@ -4,6 +4,7 @@
 #' @param verbose if \code{TRUE}, prints extra output information
 #' @importFrom utils read.delim
 #' @importFrom vcfR read.vcfR
+#' @importFrom Rsamtools scanBam
 #' @references Samtools: a suite of programs for interacting
 #' with high-throughput sequencing data. <http://www.htslib.org/>
 #' @export