Add environment variables back

docker/Dockerfile

@@ -1,10 +1,7 @@
 FROM debian:stretch
 MAINTAINER Paolo Di Tommaso <paolo.ditommaso@gmail.com>
 
-RUN sed -i s/deb.debian.org/archive.debian.org/g /etc/apt/sources.list && \
-  sed -i s/security.debian.org/archive.debian.org/g /etc/apt/sources.list && \
-  sed -i '/stretch-updates/d' /etc/apt/sources.list && \
-  apt-get update --fix-missing && \
+RUN apt-get update --fix-missing && \
   apt-get install -q -y bc vim procps ghostscript unzip curl wget && \
   apt-get install -q -y perl-modules libnet-ssleay-perl libcrypt-ssleay-perl libssl-dev libexpat1 libexpat1-dev liblwp-protocol-https-perl && \
   apt-get install -q -y libgfortran3 libglib2.0-0 libgomp1 && \
@@ -13,13 +10,11 @@ RUN sed -i s/deb.debian.org/archive.debian.org/g /etc/apt/sources.list && \
 RUN mkdir -p /root
 ENV HOME /root  
 WORKDIR /root
-
 #
 # Blast+
 # 
 RUN curl -s ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.2.28/ncbi-blast-2.2.28+-x64-linux.tar.gz | tar xz -C /opt &&\
   ln -s /opt/ncbi-blast-2.2.28+ /opt/ncbi-blast 
-
 #
 # Add T-Coffee
 # 
@@ -29,6 +24,3 @@ ADD tcoffee /opt/tcoffee
 # Environment 
 #
 ENV PATH=$PATH:/opt/ncbi-blast/bin:/opt/tcoffee/bin:/opt/tcoffee/plugins/linux/ TEMP=/tmp PERL5LIB=/opt/tcoffee/perl/lib/perl5 DIR_4_TCOFFEE=/opt/tcoffee EMAIL_4_TCOFFEE=tcoffee.msa@gmail.com CACHE_4_TCOFFEE=/tmp/cache/ LOCKDIR_4_TCOFFEE=/tmp/lck/ TMP_4_TCOFFEE=/tmp/  
-
-
-