From e351d2fc0fd5c5d3de4f64dd4b77df349b317421 Mon Sep 17 00:00:00 2001
From: Danielle Callan <dmleake92@gmail.com>
Date: Tue, 18 Nov 2025 09:39:00 -0500
Subject: [PATCH 1/2] try to get everything on same veupathutils as
 computations package is

---
 DESCRIPTION | 8 ++++----
 1 file changed, 4 insertions(+), 4 deletions(-)

diff --git a/DESCRIPTION b/DESCRIPTION
index 74568de..03d54c8 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -1,6 +1,6 @@
 Package: MicrobiomeDB
 Title: Curated Data and Analysis Tools from MicrobiomeDB.org
-Version: 1.1.1
+Version: 1.1.3
 Authors@R:
     c(person(given = "Danielle",
             family = "Callan",
@@ -12,15 +12,15 @@ Imports:
     data.table,
     DESeq2,
     igraph,
-    veupathUtils,
+    veupathUtils (>= 2.7.0),
     Maaslin2,
     methods,
-    microbiomeComputations,
+    microbiomeComputations (>= 5.1.6),
     purrr,
     SummarizedExperiment,
     TreeSummarizedExperiment
 Remotes:
-    microbiomeDB/veupathUtils,
+    VEuPathDB/veupathUtils,
     microbiomeDB/corGraph,
     microbiomeDB/microbiomeComputations,
     microbiomeDB/microbiomeData

From c3fa07de23ab18798a37a60696b40921e948138d Mon Sep 17 00:00:00 2001
From: Danielle Callan <dmleake92@gmail.com>
Date: Tue, 18 Nov 2025 10:52:30 -0500
Subject: [PATCH 2/2] attempt 1 fix maaslin dep

---
 DESCRIPTION | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/DESCRIPTION b/DESCRIPTION
index 03d54c8..6b44168 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -23,7 +23,8 @@ Remotes:
     VEuPathDB/veupathUtils,
     microbiomeDB/corGraph,
     microbiomeDB/microbiomeComputations,
-    microbiomeDB/microbiomeData
+    microbiomeDB/microbiomeData,
+    bioc::Maaslin2
 URL: https://github.com/microbiomeDB/MicrobiomeDB, https://microbiomedb.github.io/MicrobiomeDB/
 BugReports: https://github.com/microbiomeDB/MicrobiomeDB/issues
 Description: This package is intended to be used to explore the curated datasets from MicrobiomeDB.org, as well as your own datasets. It comes pre-packaged with the same functions used to power the analysis tools from the website. It also contains functions to facilitate easily transforming data between our custom objects, phyloseq objects, and .biom files that you can upload to the website.