Error duplicate def

frangiPANe/containers/frangiPANe.def

@@ -25,6 +25,9 @@ echo "\n debconf debconf/frontend select Noninteractive\n" | debconf-set-selecti
 echo "\n ###### wget...\n"
 apt-get install -y wget
 
+python3 -m pip install -U pip setuptools build numba --yes
+python3 -m pip install ipython panel biopython pysam pandas matplotlib seaborn
+
 echo "\n\n ########### Installing tools...\n"
 
 echo "\n\n ###### samtools ea-utils bwa samtools...\n"
@@ -37,7 +40,6 @@ echo "\n\n ###### ncbi-blast+ ncbi-tools-bin...\n"
 apt-get install -y ncbi-blast+ ncbi-tools-bin
 
 
-
 # Create a directory for Miniconda, download and install Miniconda
 echo  "\n\n ########### Setting up Miniconda...\n"
 
@@ -56,61 +58,6 @@ export PATH="/usr/local/miniconda/miniconda3/bin:/usr/bin/:$PATH" >> $SINGULARIT
 # Install the assembly-stats tool via conda
 #echo "\n########### Installing assembly-stats via conda...\n"
 conda install -y bioconda::assembly-stats
-# Use Docker as the bootstrap with the base Ubuntu image
-Bootstrap: docker
-From: ubuntu:latest
-
-# Metadata labels for the container
-%labels
-Maintainer Christine Tranchant-Dubreuil christine.tranchant@ird.fr
-version="1.0"
-software="frangiPANe"
-
-description="Conda dependances of frangiPANe"
-website=...
-
-%environment
-export PATH="/usr/local/miniconda/miniconda3/bin:/usr/bin:$PATH"
-
-# Post-installation section
-%post
-# Update the system and install bioinformatic tools using apt-get
-echo "\n\n ########### Updating the system...\n"
-apt-get update -y
-
-echo "\n debconf debconf/frontend select Noninteractive\n" | debconf-set-selections
-
-echo "\n ###### wget...\n"
-apt-get install -y wget
-
-echo "\n\n ########### Installing tools...\n"
-
-echo "\n\n ###### samtools ea-utils bwa samtools...\n"
-apt-get install -y samtools ea-utils bwa samtools
-
-echo "\n\n ###### abyss cd-hit...\n"
-apt-get install -y abyss cd-hit
-
-echo "\n\n ###### ncbi-blast+ ncbi-tools-bin...\n"
-apt-get install -y ncbi-blast+ ncbi-tools-bin
-
-python3 -m pip install -U pip setuptools build numba --yes
-python3 -m pip install ipython panel biopython pysam pandas matplotlib seaborn
-
-# Create a directory for Miniconda, download and install Miniconda
-echo  "\n\n ########### Setting up Miniconda...\n"
-
-mkdir /usr/local/miniconda && cd /usr/local/miniconda
-wget https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh -O Miniconda3-latest-Linux-x86_64.sh
-chmod +x Miniconda3-latest-Linux-x86_64.sh
-./Miniconda3-latest-Linux-x86_64.sh -b -p /usr/local/miniconda/miniconda3 && rm Miniconda3-latest-Linux-x86_64.sh
-
-cd /usr/local/miniconda/miniconda3/bin
-export PATH="/usr/local/miniconda/miniconda3/bin:/usr/bin/:$PATH" >> $SINGULARITY_ENVIRONMENT
-
-# Install the assembly-stats tool via conda
-echo "\n########### Installing assembly-stats via conda...\n"
-conda install -y bioconda::assembly-stats
 
 # Use %runscript to set the default script to run when no command is specified
 %runscript