bump SQLite & zstd

Author: mlin

.github/workflows/build.yml

@@ -5,7 +5,6 @@ env:
   APT_DEPS: libzstd-dev samtools tabix libhts-dev pigz python3-pip libcurl4-openssl-dev
   BREW_DEPS: python@3.8 sqlite zstd samtools pigz coreutils
   PIP_DEPS: pytest pytest-xdist
-  SQLITE_VERSION: 3340000
 
 jobs:
 
@@ -75,7 +74,7 @@ jobs:
         rm build/libgenomicsqlite.so
         sudo apt-get remove -y libzstd-dev  # should be linked into libgenomicsqlite.so
     - name: build portable .so in docker
-      run: docker build --build-arg "SQLITE_VERSION=${SQLITE_VERSION}" -t genomicsqlite . && docker run -v $(pwd):/mnt --rm genomicsqlite cp /usr/local/lib/{libgenomicsqlite.so,libsqlite3.so.0} /mnt/build/
+      run: docker build -t genomicsqlite . && docker run -v $(pwd):/mnt --rm genomicsqlite cp /usr/local/lib/{libgenomicsqlite.so,libsqlite3.so.0} /mnt/build/
     - name: symbols & digests
       run: |
         readelf -d build/libgenomicsqlite.so

Dockerfile

@@ -4,8 +4,8 @@
 FROM centos:7 as builder
 
 ARG CMAKE_VERSION=3.17.3
-ARG SQLITE_VERSION=3340000
-ARG ZSTD_VERSION=1.4.8
+ARG SQLITE_VERSION=3350500
+ARG ZSTD_VERSION=1.5.0
 ARG CPU_ARCH=ivybridge
 ENV CFLAGS="-march=${CPU_ARCH} -O3"
 ENV CXXFLAGS=${CFLAGS}
@@ -35,7 +35,7 @@ RUN mkdir -p /work/GenomicSQLite
 
 # SQLite
 WORKDIR /work
-RUN wget -nv https://www.sqlite.org/2020/sqlite-amalgamation-${SQLITE_VERSION}.zip \
+RUN wget -nv https://www.sqlite.org/2021/sqlite-amalgamation-${SQLITE_VERSION}.zip \
         && unzip -o sqlite-amalgamation-${SQLITE_VERSION}.zip
 WORKDIR /work/sqlite-amalgamation-${SQLITE_VERSION}
 RUN bash -c "scl enable devtoolset-8 'gcc -shared -o libsqlite3.so.0 -fPIC -shared -Wl,-soname,libsqlite3.so.0 -g ${CFLAGS} ${SQLITE_CFLAGS} sqlite3.c' & pid=$? \