Error while running QIIME2 - ValueError: Timezone offset does not match system offset: 0 != -25200. Please, check your config files

Hi @thermokarst, I’m currently running QIIME2 pipeline in a singularity container and I get this ValueError of timezones not matching. Could you please let me know how I can fix it. Thanks.

Chetana

Hi @chetana! Did you create the singularity container, or did someone else? We don’t provide a singularity container ourselves, so we don’t have too much experience with this, but my guess is that an environment variable in the container is mis-configured (my guess is the TZ env var). Can you run arbitrary commands inside the container? If so, please run this command:

env

and copy-and-paste the complete results here for us to look at. Thanks!

Hi @thermokarst thanks for the response. Someone else built the container and I’m trying to run qiime2 in it. Please find the ''env" below. Thanks for your help.

CONDA_SHLVL=1

QTINC=/usr/lib64/qt-3.3/include

LC_ALL=C.UTF-8

EBVERSIONSINGULARITY=3.0.3

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LD_LIBRARY_PATH=/gstore/apps/libuuid/1.0.3-foss-2017a/lib:/gstore/apps/go/1.11/lib:/gstore/apps/libarchive/3.3.3-foss-2017a/lib:/gstore/apps/libxml2/2.9.4-foss-2017a/lib:/gstore/apps/zlib/1.2.11-GCCcore-6.3.0/lib:/gstore/apps/ScaLAPACK/2.0.2-gompi-2017a-OpenBLAS-0.2.19-LAPACK-3.7.0/lib:/gstore/apps/FFTW/3.3.6-gompi-2017a/lib:/gstore/apps/OpenBLAS/0.2.19-GCC-6.3.0-2.28-LAPACK-3.7.0/lib:/gstore/apps/OpenMPI/2.1.0-GCC-6.3.0-2.28/lib:/gstore/apps/hwloc/1.11.6-GCC-6.3.0-2.28/lib:/gstore/apps/numactl/2.0.11-GCCcore-6.3.0/lib:/gstore/apps/binutils/2.28-GCCcore-6.3.0/lib:/gstore/apps/GCCcore/6.3.0/lib/gcc/x86_64-pc-linux-gnu/6.3.0:/gstore/apps/GCCcore/6.3.0/lib64:/gstore/apps/GCCcore/6.3.0/lib:/cm/shared/apps/slurm/17.11.11/lib64/slurm:/cm/shared/apps/slurm/17.11.11/lib64:/.singularity.d/libs

CONDA_EXE=/opt/conda/bin/conda

EBROOTBINUTILS=/gstore/apps/binutils/2.28-GCCcore-6.3.0

XDG_CONFIG_HOME=/home/qiime2

__LMOD_REF_COUNT_PATH=/gstore/apps/singularity/3.0.3-foss-2017a/bin:1;/gstore/apps/dep/0.5.0-foss-2017a/bin:1;/gstore/apps/go/1.11/bin:1;/gstore/apps/libarchive/3.3.3-foss-2017a/bin:1;/gstore/apps/libxml2/2.9.4-foss-2017a/bin:1;/gstore/apps/FFTW/3.3.6-gompi-2017a/bin:1;/gstore/apps/OpenBLAS/0.2.19-GCC-6.3.0-2.28-LAPACK-3.7.0/bin:1;/gstore/apps/OpenMPI/2.1.0-GCC-6.3.0-2.28/bin:1;/gstore/apps/hwloc/1.11.6-GCC-6.3.0-2.28/sbin:1;/gstore/apps/hwloc/1.11.6-GCC-6.3.0-2.28/bin:1;/gstore/apps/numactl/2.0.11-GCCcore-6.3.0/bin:1;/gstore/apps/binutils/2.28-GCCcore-6.3.0/bin:1;/gstore/apps/GCCcore/6.3.0/bin:1;/cm/shared/apps/slurm/17.11.11/sbin:1;/cm/shared/apps/slurm/17.11.11/bin:1;/gstore/apps/utils/bin:1;/usr/lib64/qt-3.3/bin:1;/usr/local/bin:1;/usr/bin:1;/usr/local/sbin:1;/usr/sbin:1;/opt/ibutils/bin:1;~/bin:1

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SSH_CONNECTION=128.137.17.10 59469 10.39.54.1 22

GPROF=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-gprof

EBDEVELFOSS=/gstore/apps/foss/2017a/gstore/apps/logs/foss-2017a-easybuild-devel

EBVERSIONNUMACTL=2.0.11

EBVERSIONLIBARCHIVE=3.3.3

EBROOTOPENBLAS=/gstore/apps/OpenBLAS/0.2.19-GCC-6.3.0-2.28-LAPACK-3.7.0

LANG=C.UTF-8

EBVERSIONSCALAPACK=2.0.2

EBROOTGCC=/gstore/apps/GCCcore/6.3.0

HISTCONTROL=ignoredups

SQUEUE_FORMAT2=jobid:10,arraytaskid:10,partition:10,qos:10,name:20,username:10,state:10,numcpus:6,numnodes:6,gres:8,starttime:22,timeused:12,reasonlist:17

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MODULERCFILE=/system/gredit/lmod/MODULERC

EBVERSIONGOMPI=2017a

GXX=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-g++

EBROOTLIBUUID=/gstore/apps/libuuid/1.0.3-foss-2017a

JAVA_LD_LIBRARY_PATH=/opt/conda/envs/qiime2-2019.7/lib/server

HOSTNAME=nl002

QTDIR=/usr/lib64/qt-3.3

OLDPWD=/gstore/home/macherls

EBDEVELNUMACTL=/gstore/apps/numactl/2.0.11-GCCcore-6.3.0/gstore/apps/logs/numactl-2.0.11-GCCcore-6.3.0-easybuild-devel

__LMOD_REF_COUNT__LMFILES_=/gstore/apps/modulefiles/common/slurm/17.11.11.lua:1;/gstore/apps/modulefiles/common/gredenv.lua:1;/gstore/apps/modulefiles/all/GCCcore/6.3.0.lua:1;/gstore/apps/modulefiles/all/binutils/2.28-GCCcore-6.3.0.lua:1;/gstore/apps/modulefiles/all/GCC/6.3.0-2.28.lua:1;/gstore/apps/modulefiles/all/numactl/2.0.11-GCCcore-6.3.0.lua:1;/gstore/apps/modulefiles/all/hwloc/1.11.6-GCC-6.3.0-2.28.lua:1;/gstore/apps/modulefiles/all/OpenMPI/2.1.0-GCC-6.3.0-2.28.lua:1;/gstore/apps/modulefiles/all/OpenBLAS/0.2.19-GCC-6.3.0-2.28-LAPACK-3.7.0.lua:1;/gstore/apps/modulefiles/all/gompi/2017a.lua:1;/gstore/apps/modulefiles/all/FFTW/3.3.6-gompi-2017a.lua:1;/gstore/apps/modulefiles/all/ScaLAPACK/2.0.2-gompi-2017a-OpenBLAS-0.2.19-LAPACK-3.7.0.lua:1;/gstore/apps/modulefiles/all/foss/2017a.lua:1;/gstore/apps/modulefiles/all/squashfs-tools/4.3-foss-2017a.lua:1;/gstore/apps/modulefiles/all/zlib/1.2.11-GCCcore-6.3.0.lua:1;/gstore/apps/modulefiles/all/libxml2/2.9.4-foss-2017a.lua:1;/gstore/apps/modulefiles/all/libarchive/3.3.3-foss-2017a.lua:1;/gstore/apps/modulefiles/all/go/1.11.lua:1;/gstore/apps/modulefiles/all/dep/0.5.0-foss-2017a.lua:1;/gstore/apps/modulefiles/all/libuuid/1.0.3-foss-2017a.lua:1;/gstore/apps/modulefiles/all/singularity/3.0.3-foss-2017a.lua:1

LD_GOLD=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-ld.gold

LMOD_CASE_INDEPENDENT_SORTING=yes

DEBUG_CPPFLAGS=-D_DEBUG -D_FORTIFY_SOURCE=2 -Og

DEBUG_CFLAGS=-march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-all -fno-plt -Og -g -Wall -Wextra -fvar-tracking-assignments -ffunction-sections -pipe

EBVERSIONOPENMPI=2.1.0

GCC_NM=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-gcc-nm

EBVERSIONFOSS=2017a

EBDEVELSQUASHFSMINTOOLS=/gstore/apps/squashfs-tools/4.3-foss-2017a/gstore/apps/logs/squashfs-tools-4.3-foss-2017a-easybuild-devel

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EBVERSIONOPENBLAS=0.2.19

CONDA_PREFIX=/opt/conda/envs/qiime2-2019.7

JAVA_HOME=/opt/conda/envs/qiime2-2019.7

GCC_RANLIB=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-gcc-ranlib

EBROOTGOMPI=/gstore/apps/gompi/2017a

CFLAGS=-march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe

EBROOTOPENMPI=/gstore/apps/OpenMPI/2.1.0-GCC-6.3.0-2.28

LMOD_RC=/system/gredit/lmod/lmodrc.lua

__LMOD_REF_COUNT_LD_LIBRARY_PATH=/gstore/apps/libuuid/1.0.3-foss-2017a/lib:1;/gstore/apps/go/1.11/lib:1;/gstore/apps/libarchive/3.3.3-foss-2017a/lib:1;/gstore/apps/libxml2/2.9.4-foss-2017a/lib:1;/gstore/apps/zlib/1.2.11-GCCcore-6.3.0/lib:1;/gstore/apps/ScaLAPACK/2.0.2-gompi-2017a-OpenBLAS-0.2.19-LAPACK-3.7.0/lib:1;/gstore/apps/FFTW/3.3.6-gompi-2017a/lib:1;/gstore/apps/OpenBLAS/0.2.19-GCC-6.3.0-2.28-LAPACK-3.7.0/lib:1;/gstore/apps/OpenMPI/2.1.0-GCC-6.3.0-2.28/lib:1;/gstore/apps/hwloc/1.11.6-GCC-6.3.0-2.28/lib:1;/gstore/apps/numactl/2.0.11-GCCcore-6.3.0/lib:1;/gstore/apps/binutils/2.28-GCCcore-6.3.0/lib:1;/gstore/apps/GCCcore/6.3.0/lib/gcc/x86_64-pc-linux-gnu/6.3.0:1;/gstore/apps/GCCcore/6.3.0/lib64:1;/gstore/apps/GCCcore/6.3.0/lib:1;/cm/shared/apps/slurm/17.11.11/lib64/slurm:1;/cm/shared/apps/slurm/17.11.11/lib64:1

__LMOD_REF_COUNT_PKG_CONFIG_PATH=/gstore/apps/libuuid/1.0.3-foss-2017a/lib/pkgconfig:1;/gstore/apps/libarchive/3.3.3-foss-2017a/lib/pkgconfig:1;/gstore/apps/libxml2/2.9.4-foss-2017a/lib/pkgconfig:1;/gstore/apps/zlib/1.2.11-GCCcore-6.3.0/lib/pkgconfig:1;/gstore/apps/FFTW/3.3.6-gompi-2017a/lib/pkgconfig:1;/gstore/apps/OpenMPI/2.1.0-GCC-6.3.0-2.28/lib/pkgconfig:1;/gstore/apps/hwloc/1.11.6-GCC-6.3.0-2.28/lib/pkgconfig:1

GCC_AR=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-gcc-ar

R_LIBS_USER=/opt/conda/envs/qiime2-2019.7/lib/R/library/

EBROOTGCCCORE=/gstore/apps/GCCcore/6.3.0

SINGULARITY_APPNAME=

EBROOTSCALAPACK=/gstore/apps/ScaLAPACK/2.0.2-gompi-2017a-OpenBLAS-0.2.19-LAPACK-3.7.0

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EBROOTDEP=/gstore/apps/dep/0.5.0-foss-2017a

EBVERSIONGCC=6.3.0

_CE_M=

TINI_VERSION=v0.16.1

EBDEVELHWLOC=/gstore/apps/hwloc/1.11.6-GCC-6.3.0-2.28/gstore/apps/logs/hwloc-1.11.6-GCC-6.3.0-2.28-easybuild-devel

CC=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-cc

READELF=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-readelf

EBROOTZLIB=/gstore/apps/zlib/1.2.11-GCCcore-6.3.0

XDG_SESSION_ID=232946

ARBHOME=/opt/conda/envs/qiime2-2019.7/lib/arb

USER_PATH=/gstore/apps/singularity/3.0.3-foss-2017a/bin:/gstore/apps/dep/0.5.0-foss-2017a/bin:/gstore/apps/go/1.11/bin:/gstore/apps/libarchive/3.3.3-foss-2017a/bin:/gstore/apps/libxml2/2.9.4-foss-2017a/bin:/gstore/apps/FFTW/3.3.6-gompi-2017a/bin:/gstore/apps/OpenBLAS/0.2.19-GCC-6.3.0-2.28-LAPACK-3.7.0/bin:/gstore/apps/OpenMPI/2.1.0-GCC-6.3.0-2.28/bin:/gstore/apps/hwloc/1.11.6-GCC-6.3.0-2.28/sbin:/gstore/apps/hwloc/1.11.6-GCC-6.3.0-2.28/bin:/gstore/apps/numactl/2.0.11-GCCcore-6.3.0/bin:/gstore/apps/binutils/2.28-GCCcore-6.3.0/bin:/gstore/apps/GCCcore/6.3.0/bin:/cm/shared/apps/slurm/17.11.11/sbin:/cm/shared/apps/slurm/17.11.11/bin:/gstore/apps/utils/bin:/usr/lib64/qt-3.3/bin:/usr/local/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/opt/ibutils/bin:~/bin:/bin:/usr/bin:/sbin:/usr/sbin:/usr/local/bin:/usr/local/sbin

USER=macherls

CXXFLAGS=-fvisibility-inlines-hidden -std=c++17 -fmessage-length=0 -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe

EBDEVELLIBXML2=/gstore/apps/libxml2/2.9.4-foss-2017a/gstore/apps/logs/libxml2-2.9.4-foss-2017a-easybuild-devel

ARBHOME_BACKUP=

EBVERSIONHWLOC=1.11.6

STRIP=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-strip

DEBUG_FFLAGS=-fopenmp -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe -fopenmp -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-all -fno-plt -Og -g -Wall -Wextra -fcheck=all -fbacktrace -fimplicit-none -fvar-tracking-assignments -ffunction-sections -pipe

LMOD_REDIRECT=yes

OBJCOPY=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-objcopy

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EBVERSIONGCCCORE=6.3.0

_CONDA_PYTHON_SYSCONFIGDATA_NAME=_sysconfigdata_x86_64_conda_cos6_linux_gnu

EBROOTLIBARCHIVE=/gstore/apps/libarchive/3.3.3-foss-2017a

SINGULARITY_CONTAINER=/gstore/data/genomics/pipeline_resources/containers/qiime2-2019.7.sif

EBROOTSINGULARITY=/gstore/apps/singularity/3.0.3-foss-2017a

__LMOD_REF_COUNT_MODULEPATH=/gstore/apps/modulefiles/all:1;/gstore/apps/modulefiles/common:1;/gstore/apps/modulefiles/bioinfo:1;/gstore/apps/modulefiles/cdd:1

PYTHONNOUSERSITE=/opt/conda/envs/qiime2-2019.7/lib/python*/site-packages/

EBDEVELLIBARCHIVE=/gstore/apps/libarchive/3.3.3-foss-2017a/gstore/apps/logs/libarchive-3.3.3-foss-2017a-easybuild-devel

__LMOD_REF_COUNT_LOADEDMODULES=slurm/17.11.11:1;gredenv:1;GCCcore/6.3.0:1;binutils/2.28-GCCcore-6.3.0:1;GCC/6.3.0-2.28:1;numactl/2.0.11-GCCcore-6.3.0:1;hwloc/1.11.6-GCC-6.3.0-2.28:1;OpenMPI/2.1.0-GCC-6.3.0-2.28:1;OpenBLAS/0.2.19-GCC-6.3.0-2.28-LAPACK-3.7.0:1;gompi/2017a:1;FFTW/3.3.6-gompi-2017a:1;ScaLAPACK/2.0.2-gompi-2017a-OpenBLAS-0.2.19-LAPACK-3.7.0:1;foss/2017a:1;squashfs-tools/4.3-foss-2017a:1;zlib/1.2.11-GCCcore-6.3.0:1;libxml2/2.9.4-foss-2017a:1;libarchive/3.3.3-foss-2017a:1;go/1.11:1;dep/0.5.0-foss-2017a:1;libuuid/1.0.3-foss-2017a:1;singularity/3.0.3-foss-2017a:1

EBDEVELGO=/gstore/apps/go/1.11/gstore/apps/logs/go-1.11-easybuild-devel

PWD=/gstore/home/macherls/gne_qiime2/singularity

EBDEVELOPENBLAS=/gstore/apps/OpenBLAS/0.2.19-GCC-6.3.0-2.28-LAPACK-3.7.0/logs/OpenBLAS-0.2.19-GCC-6.3.0-2.28-LAPACK-3.7.0-easybuild-devel

HOME=/home/qiime2

GOROOT=/gstore/apps/go/1.11

EBROOTFOSS=/gstore/apps/foss/2017a

ADDR2LINE=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-addr2line

CONDA_PYTHON_EXE=/opt/conda/bin/python

HOST=x86_64-conda_cos6-linux-gnu

SSH_CLIENT=128.137.17.10 59469 22

EBDEVELSCALAPACK=/gstore/apps/ScaLAPACK/2.0.2-gompi-2017a-OpenBLAS-0.2.19-LAPACK-3.7.0/gstore/apps/logs/ScaLAPACK-2.0.2-gompi-2017a-OpenBLAS-0.2.19-LAPACK-3.7.0-easybuild-devel

LMOD_VERSION=7.7.34

CPATH=/gstore/apps/libuuid/1.0.3-foss-2017a/include:/gstore/apps/libarchive/3.3.3-foss-2017a/include:/gstore/apps/libxml2/2.9.4-foss-2017a/include:/gstore/apps/zlib/1.2.11-GCCcore-6.3.0/include:/gstore/apps/ScaLAPACK/2.0.2-gompi-2017a-OpenBLAS-0.2.19-LAPACK-3.7.0/include:/gstore/apps/FFTW/3.3.6-gompi-2017a/include:/gstore/apps/OpenBLAS/0.2.19-GCC-6.3.0-2.28-LAPACK-3.7.0/include:/gstore/apps/OpenMPI/2.1.0-GCC-6.3.0-2.28/include:/gstore/apps/hwloc/1.11.6-GCC-6.3.0-2.28/include:/gstore/apps/numactl/2.0.11-GCCcore-6.3.0/include:/gstore/apps/binutils/2.28-GCCcore-6.3.0/include:/gstore/apps/GCCcore/6.3.0/include:/cm/shared/apps/slurm/17.11.11/include

SINGULARITY_CACHEDIR=/gstore/scratch/u/macherls

F77=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-gfortran

KRB5CCNAME=FILE:/tmp/krb5cc_751380_IcjozQ

FORTRANFLAGS=-fopenmp -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe

BASH_ENV=/gstore/apps/Lmod/default/lmod/lmod/init/bash

EBVERSIONSQUASHFSMINTOOLS=4.3

RANLIB=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-ranlib

OBJDUMP=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-objdump

AS=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-as

AR=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-ar

EBVERSIONLIBUUID=1.0.3

GFORTRAN=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-gfortran

CONDA_BACKUP_HOST=x86_64-conda_cos6-linux-gnu

_CE_CONDA=

EBROOTLIBXML2=/gstore/apps/libxml2/2.9.4-foss-2017a

__LMOD_REF_COUNT_LIBRARY_PATH=/gstore/apps/libuuid/1.0.3-foss-2017a/lib:1;/gstore/apps/go/1.11/lib:1;/gstore/apps/libarchive/3.3.3-foss-2017a/lib:1;/gstore/apps/libxml2/2.9.4-foss-2017a/lib:1;/gstore/apps/zlib/1.2.11-GCCcore-6.3.0/lib:1;/gstore/apps/ScaLAPACK/2.0.2-gompi-2017a-OpenBLAS-0.2.19-LAPACK-3.7.0/lib:1;/gstore/apps/FFTW/3.3.6-gompi-2017a/lib:1;/gstore/apps/OpenBLAS/0.2.19-GCC-6.3.0-2.28-LAPACK-3.7.0/lib:1;/gstore/apps/OpenMPI/2.1.0-GCC-6.3.0-2.28/lib:1;/gstore/apps/hwloc/1.11.6-GCC-6.3.0-2.28/lib:1;/gstore/apps/numactl/2.0.11-GCCcore-6.3.0/lib:1;/gstore/apps/binutils/2.28-GCCcore-6.3.0/lib:1;/gstore/apps/GCCcore/6.3.0/lib64:1;/gstore/apps/GCCcore/6.3.0/lib:1;/cm/shared/apps/slurm/17.11.11/lib64/slurm:1;/cm/shared/apps/slurm/17.11.11/lib64:1

EBVERSIONLIBXML2=2.9.4

LIBRARY_PATH=/gstore/apps/libuuid/1.0.3-foss-2017a/lib:/gstore/apps/go/1.11/lib:/gstore/apps/libarchive/3.3.3-foss-2017a/lib:/gstore/apps/libxml2/2.9.4-foss-2017a/lib:/gstore/apps/zlib/1.2.11-GCCcore-6.3.0/lib:/gstore/apps/ScaLAPACK/2.0.2-gompi-2017a-OpenBLAS-0.2.19-LAPACK-3.7.0/lib:/gstore/apps/FFTW/3.3.6-gompi-2017a/lib:/gstore/apps/OpenBLAS/0.2.19-GCC-6.3.0-2.28-LAPACK-3.7.0/lib:/gstore/apps/OpenMPI/2.1.0-GCC-6.3.0-2.28/lib:/gstore/apps/hwloc/1.11.6-GCC-6.3.0-2.28/lib:/gstore/apps/numactl/2.0.11-GCCcore-6.3.0/lib:/gstore/apps/binutils/2.28-GCCcore-6.3.0/lib:/gstore/apps/GCCcore/6.3.0/lib64:/gstore/apps/GCCcore/6.3.0/lib:/cm/shared/apps/slurm/17.11.11/lib64/slurm:/cm/shared/apps/slurm/17.11.11/lib64

LMOD_sys=Linux

_ModuleTable010_=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

DEBUG_FORTRANFLAGS=-fopenmp -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe -fopenmp -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-all -fno-plt -Og -g -Wall -Wextra -fcheck=all -fbacktrace -fimplicit-none -fvar-tracking-assignments -ffunction-sections -pipe

_ModuleTable001_=X01vZHVsZVRhYmxlXz17WyJNVHZlcnNpb24iXT0zLFsiY19yZWJ1aWxkVGltZSJdPTcyMDAsWyJjX3Nob3J0VGltZSJdPTAuNzczODkyMTY0MjMwMzUsZGVwdGhUPXt9LGZhbWlseT17fSxtVD17RkZUVz17WyJmbiJdPSIvZ3N0b3JlL2FwcHMvbW9kdWxlZmlsZXMvYWxsL0ZGVFcvMy4zLjYtZ29tcGktMjAxN2EubHVhIixbImZ1bGxOYW1lIl09IkZGVFcvMy4zLjYtZ29tcGktMjAxN2EiLFsibG9hZE9yZGVyIl09MTEscHJvcFQ9e30sWyJzdGFja0RlcHRoIl09MixbInN0YXR1cyJdPSJhY3RpdmUiLFsidXNlck5hbWUiXT0iRkZUVy8zLjMuNi1nb21waS0yMDE3YSIsfSxHQ0M9e1siZm4iXT0iL2dzdG9yZS9hcHBzL21vZHVsZWZpbGVzL2FsbC9HQ0MvNi4zLjAtMi4yOC5sdWEi

EBDEVELGOMPI=/gstore/apps/gompi/2017a/gstore/apps/logs/gompi-2017a-easybuild-devel

LOADEDMODULES=slurm/17.11.11:gredenv:GCCcore/6.3.0:binutils/2.28-GCCcore-6.3.0:GCC/6.3.0-2.28:numactl/2.0.11-GCCcore-6.3.0:hwloc/1.11.6-GCC-6.3.0-2.28:OpenMPI/2.1.0-GCC-6.3.0-2.28:OpenBLAS/0.2.19-GCC-6.3.0-2.28-LAPACK-3.7.0:gompi/2017a:FFTW/3.3.6-gompi-2017a:ScaLAPACK/2.0.2-gompi-2017a-OpenBLAS-0.2.19-LAPACK-3.7.0:foss/2017a:squashfs-tools/4.3-foss-2017a:zlib/1.2.11-GCCcore-6.3.0:libxml2/2.9.4-foss-2017a:libarchive/3.3.3-foss-2017a:go/1.11:dep/0.5.0-foss-2017a:libuuid/1.0.3-foss-2017a:singularity/3.0.3-foss-2017a

GRED_SREGISTRY_DATABASE=/system/containers/registry/sregistry.db

LMOD_AVAIL_STYLE=system:<gred_hpc>

EBROOTGO=/gstore/apps/go/1.11

FC=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-gfortran

__LMOD_REF_COUNT_ACLOCAL_PATH=/gstore/apps/libxml2/2.9.4-foss-2017a/share/aclocal:1

EBDEVELOPENMPI=/gstore/apps/OpenMPI/2.1.0-GCC-6.3.0-2.28/gstore/apps/logs/OpenMPI-2.1.0-GCC-6.3.0-2.28-easybuild-devel

__LMOD_REF_COUNT_MANPATH=/gstore/apps/libarchive/3.3.3-foss-2017a/share/man:1;/gstore/apps/libxml2/2.9.4-foss-2017a/share/man:1;/gstore/apps/zlib/1.2.11-GCCcore-6.3.0/share/man:1;/gstore/apps/FFTW/3.3.6-gompi-2017a/share/man:1;/gstore/apps/OpenMPI/2.1.0-GCC-6.3.0-2.28/share/man:1;/gstore/apps/hwloc/1.11.6-GCC-6.3.0-2.28/share/man:1;/gstore/apps/numactl/2.0.11-GCCcore-6.3.0/share/man:1;/gstore/apps/binutils/2.28-GCCcore-6.3.0/share/man:1;/gstore/apps/GCCcore/6.3.0/share/man:1;/cm/shared/apps/slurm/17.11.11/man:1;/gstore/apps/Lmod/default/lmod/lmod/share/man:1;/usr/local/share/man:1;/usr/share/man/overrides:1;/usr/share/man:1;/opt/ibutils/share/man:1;/cm/local/apps/environment-modules/current/share/man:1

_ModuleTable006_=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

SCRATCH=/gstore/scratch/u/macherls

EBVERSIONZLIB=1.2.11

_ModuleTable003_=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

NM=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-nm

CONDA_PROMPT_MODIFIER=(qiime2-2019.7) 

SSH_TTY=/dev/pts/27

_ModuleTable013_=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

MAIL=/var/spool/mail/macherls

DEBUG_CXXFLAGS=-fvisibility-inlines-hidden -std=c++17 -fmessage-length=0 -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-all -fno-plt -Og -g -Wall -Wextra -fvar-tracking-assignments -ffunction-sections -pipe

EBROOTSQUASHFSMINTOOLS=/gstore/apps/squashfs-tools/4.3-foss-2017a

CXX=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-c++

QTLIB=/usr/lib64/qt-3.3/lib

EBROOTFFTW=/gstore/apps/FFTW/3.3.6-gompi-2017a

_ModuleTable009_=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

SHELL=/bin/bash

TERM=xterm-256color

LMOD_ADMIN_FILE=/system/gredit/lmod/admin.list

QT_GRAPHICSSYSTEM_CHECKED=1

SINGULARITY_NAME=qiime2-2019.7.sif

CXXFILT=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-c++filt

MPLBACKEND=Agg

EBDEVELGCCCORE=/gstore/apps/GCCcore/6.3.0/gstore/apps/logs/GCCcore-6.3.0-easybuild-devel

EBROOTHWLOC=/gstore/apps/hwloc/1.11.6-GCC-6.3.0-2.28

SIF=/gstore/data/genomics/pipeline_resources/containers/qiime2-2019.7.sif

_ModuleTable_Sz_=14

__LMOD_REF_COUNT_CPATH=/gstore/apps/libuuid/1.0.3-foss-2017a/include:1;/gstore/apps/libarchive/3.3.3-foss-2017a/include:1;/gstore/apps/libxml2/2.9.4-foss-2017a/include:1;/gstore/apps/zlib/1.2.11-GCCcore-6.3.0/include:1;/gstore/apps/ScaLAPACK/2.0.2-gompi-2017a-OpenBLAS-0.2.19-LAPACK-3.7.0/include:1;/gstore/apps/FFTW/3.3.6-gompi-2017a/include:1;/gstore/apps/OpenBLAS/0.2.19-GCC-6.3.0-2.28-LAPACK-3.7.0/include:1;/gstore/apps/OpenMPI/2.1.0-GCC-6.3.0-2.28/include:1;/gstore/apps/hwloc/1.11.6-GCC-6.3.0-2.28/include:1;/gstore/apps/numactl/2.0.11-GCCcore-6.3.0/include:1;/gstore/apps/binutils/2.28-GCCcore-6.3.0/include:1;/gstore/apps/GCCcore/6.3.0/include:1;/cm/shared/apps/slurm/17.11.11/include:1

EBDEVELBINUTILS=/gstore/apps/binutils/2.28-GCCcore-6.3.0/gstore/apps/logs/binutils-2.28-GCCcore-6.3.0-easybuild-devel

SACCT_FORMAT=jobid%-12,partition%-9,jobname%-32,user%-10,state%-10,nodelist%-12,ncpus%-5,nnodes%-5,allocgres%-6,maxrss%-8,start%-20,end%-20,elapsed%-12,cputimeraw%-9,exitcode%-4

ELFEDIT=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-elfedit

SHLVL=2

EBDEVELLIBUUID=/gstore/apps/libuuid/1.0.3-foss-2017a/gstore/apps/logs/libuuid-1.0.3-foss-2017a-easybuild-devel

ACLOCAL_PATH=/gstore/apps/libxml2/2.9.4-foss-2017a/share/aclocal

FFLAGS=-fopenmp -march=nocona -mtune=haswell -ftree-vectorize -fPIC -fstack-protector-strong -fno-plt -O2 -ffunction-sections -pipe

MANPATH=/gstore/apps/libarchive/3.3.3-foss-2017a/share/man:/gstore/apps/libxml2/2.9.4-foss-2017a/share/man:/gstore/apps/zlib/1.2.11-GCCcore-6.3.0/share/man:/gstore/apps/FFTW/3.3.6-gompi-2017a/share/man:/gstore/apps/OpenMPI/2.1.0-GCC-6.3.0-2.28/share/man:/gstore/apps/hwloc/1.11.6-GCC-6.3.0-2.28/share/man:/gstore/apps/numactl/2.0.11-GCCcore-6.3.0/share/man:/gstore/apps/binutils/2.28-GCCcore-6.3.0/share/man:/gstore/apps/GCCcore/6.3.0/share/man:/cm/shared/apps/slurm/17.11.11/man:/gstore/apps/Lmod/default/lmod/lmod/share/man:/usr/local/share/man:/usr/share/man/overrides:/usr/share/man:/opt/ibutils/share/man:/cm/local/apps/environment-modules/current/share/man

EBDEVELGCC=/gstore/apps/GCC/6.3.0-2.28/gstore/apps/logs/GCC-6.3.0-2.28-easybuild-devel

CPPFLAGS=-DNDEBUG -D_FORTIFY_SOURCE=2 -O2

EBDEVELSINGULARITY=/gstore/apps/singularity/3.0.3-foss-2017a/gstore/apps/logs/singularity-3.0.3-foss-2017a-easybuild-devel

EBVERSIONFFTW=3.3.6

STRINGS=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-strings

F90=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-gfortran

F95=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-f95

MODULEPATH=/gstore/apps/modulefiles/all:/gstore/apps/modulefiles/common:/gstore/apps/modulefiles/bioinfo:/gstore/apps/modulefiles/cdd

EBVERSIONDEP=0.5.0

EBDEVELFFTW=/gstore/apps/FFTW/3.3.6-gompi-2017a/gstore/apps/logs/FFTW-3.3.6-gompi-2017a-easybuild-devel

LOGNAME=macherls

JAVA_HOME_CONDA_BACKUP=

XDG_RUNTIME_DIR=/run/user/751380

RSTUDIO_WHICH_R=/opt/conda/envs/qiime2-2019.7/bin/R

LDFLAGS=-Wl,-O2 -Wl,--sort-common -Wl,--as-needed -Wl,-z,relro -Wl,-z,now -Wl,--disable-new-dtags -Wl,--gc-sections

EBVERSIONBINUTILS=2.28

MODULEPATH_ROOT=/gstore/apps/modulefiles

LMOD_PACKAGE_PATH=/system/gredit/lmod

EBDEVELZLIB=/gstore/apps/zlib/1.2.11-GCCcore-6.3.0/gstore/apps/logs/zlib-1.2.11-GCCcore-6.3.0-easybuild-devel

PATH=/opt/conda/envs/qiime2-2019.7/bin:/opt/conda/condabin:/opt/conda/envs/qiime2-2019.7/bin:/opt/conda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin

_ModuleTable014_=ZWZpbGVzL2NkZCIsfQ==

_LMFILES_=/gstore/apps/modulefiles/common/slurm/17.11.11.lua:/gstore/apps/modulefiles/common/gredenv.lua:/gstore/apps/modulefiles/all/GCCcore/6.3.0.lua:/gstore/apps/modulefiles/all/binutils/2.28-GCCcore-6.3.0.lua:/gstore/apps/modulefiles/all/GCC/6.3.0-2.28.lua:/gstore/apps/modulefiles/all/numactl/2.0.11-GCCcore-6.3.0.lua:/gstore/apps/modulefiles/all/hwloc/1.11.6-GCC-6.3.0-2.28.lua:/gstore/apps/modulefiles/all/OpenMPI/2.1.0-GCC-6.3.0-2.28.lua:/gstore/apps/modulefiles/all/OpenBLAS/0.2.19-GCC-6.3.0-2.28-LAPACK-3.7.0.lua:/gstore/apps/modulefiles/all/gompi/2017a.lua:/gstore/apps/modulefiles/all/FFTW/3.3.6-gompi-2017a.lua:/gstore/apps/modulefiles/all/ScaLAPACK/2.0.2-gompi-2017a-OpenBLAS-0.2.19-LAPACK-3.7.0.lua:/gstore/apps/modulefiles/all/foss/2017a.lua:/gstore/apps/modulefiles/all/squashfs-tools/4.3-foss-2017a.lua:/gstore/apps/modulefiles/all/zlib/1.2.11-GCCcore-6.3.0.lua:/gstore/apps/modulefiles/all/libxml2/2.9.4-foss-2017a.lua:/gstore/apps/modulefiles/all/libarchive/3.3.3-foss-2017a.lua:/gstore/apps/modulefiles/all/go/1.11.lua:/gstore/apps/modulefiles/all/dep/0.5.0-foss-2017a.lua:/gstore/apps/modulefiles/all/libuuid/1.0.3-foss-2017a.lua:/gstore/apps/modulefiles/all/singularity/3.0.3-foss-2017a.lua

PS1=(qiime2-2019.7) Singularity qiime2-2019.7.sif:\w> 

GCC=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-gcc

MODULESHOME=/gstore/apps/Lmod/7.7.34-foss-2017a/lmod/lmod

CONDA_DEFAULT_ENV=qiime2-2019.7

LMOD_SETTARG_FULL_SUPPORT=no

PKG_CONFIG_PATH=/gstore/apps/libuuid/1.0.3-foss-2017a/lib/pkgconfig:/gstore/apps/libarchive/3.3.3-foss-2017a/lib/pkgconfig:/gstore/apps/libxml2/2.9.4-foss-2017a/lib/pkgconfig:/gstore/apps/zlib/1.2.11-GCCcore-6.3.0/lib/pkgconfig:/gstore/apps/FFTW/3.3.6-gompi-2017a/lib/pkgconfig:/gstore/apps/OpenMPI/2.1.0-GCC-6.3.0-2.28/lib/pkgconfig:/gstore/apps/hwloc/1.11.6-GCC-6.3.0-2.28/lib/pkgconfig

LMOD_CACHED_LOADS=yes

_ModuleTable011_=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

EBROOTNUMACTL=/gstore/apps/numactl/2.0.11-GCCcore-6.3.0

EBVERSIONGO=1.11

HISTSIZE=1000

SIZE=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-size

LMOD_PKG=/gstore/apps/Lmod/7.7.34-foss-2017a/lmod/lmod

CPP=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-cpp

LD=/opt/conda/envs/qiime2-2019.7/bin/x86_64-conda_cos6-linux-gnu-ld

_ModuleTable005_=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

LMOD_CMD=/gstore/apps/Lmod/7.7.34-foss-2017a/lmod/lmod/libexec/lmod

EBDEVELDEP=/gstore/apps/dep/0.5.0-foss-2017a/gstore/apps/logs/dep-0.5.0-foss-2017a-easybuild-devel

CVS_RSH=ssh

LESSOPEN=||/usr/bin/lesspipe.sh %s

JAVA_LD_LIBRARY_PATH_BACKUP=

LMOD_DIR=/gstore/apps/Lmod/7.7.34-foss-2017a/lmod/lmod/libexec

_=/usr/bin/env

And I do see tzlocal v2.0.0 defined in the config file of the container. I’m not sure if its the issue with qiime or the container

Can you please provide the error you observed? You mentioned above:

But, the post you linked to is not about mismatched timezones, it is about unknown timezones (which I think is different). Either way, this is almost certainly going to be easiest to fix in the definition of the singularity container, I would have a chat with whoever created the container (but, please share the error message that you saw, and the command you ran, and the version of QIIME 2 you are running).

:qiime2:

Hello
In case this is useful…
I was getting error
ValueError: Timezone offset does not match system offset: 0 != 43200. Please, check your config files.
An inhouse expert asked me to add in
export TZ=‘Pacific/Auckland’
which helped.

Thanks

1 Like

Hi @SetaPark, thanks for your response. I’m not sure where to add it in, could you please let me know?

Thanks,
Chetana

Hi @thermokarst, the version of qiime2 used for the singularity container is 2019.7. Here is the command that I used -

“qiime metadata tabulate --m-input-file /gstore/home/macherls/gne_qiime2/trial_qiime2_wdl/Demultiplex_Sheet.txt --o-visualization /gstore/home/macherls/gne_qiime2/trial_qiime2_wdl/visualizations/MQ2121_mapping.qzv”

and the error I see is -

"Plugin error from metadata:

Timezone offset does not match system offset: 0 != -25200. Please, check your config files.

Debug info has been saved to /tmp/qiime2-q2cli-err-bryq9rg_.log"

And find the debug info in the logfile qiime2_sig_logfile.txt (2.5 KB) attached to the post here.

Thanks for your help.

Chetana