diff --git a/env.yml b/env.yml
index 10696a3a..1efc9a37 100644
--- a/env.yml
+++ b/env.yml
@@ -244,7 +244,6 @@ dependencies:
   - perl-sub-info=0.002
   - perl-term-table=0.016
   - perl-test2-suite=0.000145
-  - perl-uri=5.12
   - perl-xml-libxml=2.0207
   - perl-xml-namespacesupport=1.12
   - perl-xml-sax=1.02
diff --git a/include/requirements.txt b/include/requirements.txt
index 5f1b4a8e..6001f6d5 100644
--- a/include/requirements.txt
+++ b/include/requirements.txt
@@ -2,7 +2,7 @@ bedtools
 biopython
 bowtie
 bowtie2
-cutadapt
+cutadapt>=3.0
 deeptools
 fastq-screen
 fastqc
@@ -27,6 +27,7 @@ pyfaidx
 pysam
 pytest
 pytest-xdist
+python>=3.10
 rseqc
 
 # earlier versions of salmon can segfault on Slurm