<html><head><meta http-equiv="Content-Type" content="text/html; charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class=""><span style="font-size: 14px;" class="">Hi,</span><div class=""><span style="font-size: 14px;" class=""><br class=""></span></div><div class=""><span style="font-size: 14px;" class="">We have configured and installed MAKER 2.31 with OpenMPI 2.1.5 on our HPC cluster. During build/installation, the MPI libs and mpicc wrapper are found. This is the output of ./Build status</span></div><div class=""><span style="font-size: 14px;" class=""><br class=""></span></div><div class=""><div style="margin: 0px; font-stretch: normal; line-height: normal; background-color: rgb(255, 255, 255);" class=""><span style="font-variant-ligatures: no-common-ligatures; font-size: 14px;" class="">==============================================================================</span></div><div style="margin: 0px; font-stretch: normal; line-height: normal; background-color: rgb(255, 255, 255);" class=""><span style="font-variant-ligatures: no-common-ligatures; font-size: 14px;" class="">STATUS MAKER v2.31.10</span></div><div style="margin: 0px; font-stretch: normal; line-height: normal; background-color: rgb(255, 255, 255);" class=""><span style="font-variant-ligatures: no-common-ligatures; font-size: 14px;" class="">==============================================================================</span></div><div style="margin: 0px; font-stretch: normal; line-height: normal; background-color: rgb(255, 255, 255);" class=""><span style="font-variant-ligatures: no-common-ligatures; font-size: 14px;" class="">PERL Dependencies:<span class="Apple-tab-span" style="white-space:pre"> </span>VERIFIED</span></div><div style="margin: 0px; font-stretch: normal; line-height: normal; background-color: rgb(255, 255, 255);" class=""><span style="font-variant-ligatures: no-common-ligatures; font-size: 14px;" class="">External Programs:<span class="Apple-tab-span" style="white-space:pre"> </span>VERIFIED</span></div><div style="margin: 0px; font-stretch: normal; line-height: normal; background-color: rgb(255, 255, 255);" class=""><span style="font-variant-ligatures: no-common-ligatures; font-size: 14px;" class="">External C Libraries:<span class="Apple-tab-span" style="white-space:pre"> </span>VERIFIED</span></div><div style="margin: 0px; font-stretch: normal; line-height: normal; background-color: rgb(255, 255, 255);" class=""><span style="font-variant-ligatures: no-common-ligatures; font-size: 14px;" class="">MPI SUPPORT:<span class="Apple-tab-span" style="white-space:pre"> </span>ENABLED</span></div><div style="margin: 0px; font-stretch: normal; line-height: normal; background-color: rgb(255, 255, 255);" class=""><span style="font-variant-ligatures: no-common-ligatures; font-size: 14px;" class="">MWAS Web Interface:<span class="Apple-tab-span" style="white-space:pre"> </span>DISABLED</span></div><div style="margin: 0px; font-stretch: normal; line-height: normal; background-color: rgb(255, 255, 255);" class=""><span style="font-variant-ligatures: no-common-ligatures; font-size: 14px;" class="">MAKER PACKAGE:<span class="Apple-tab-span" style="white-space:pre"> </span>CONFIGURATION OK</span></div></div><div class=""><span style="font-size: 14px;" class=""><br class=""></span></div><div class=""><div class=""><span style="background-color: rgb(255, 255, 255); font-size: 14px;" class=""><font color="#2f3941" class="">This is how we run MAKER (the number of nodes and tasks are set via #SBATCH directives):</font></span></div><div class=""><span style="background-color: rgb(255, 255, 255); font-size: 14px;" class=""><font color="#2f3941" class=""><br class=""></font></span></div><div class=""><div style="margin: 0px; font-stretch: normal; line-height: normal; background-color: rgb(255, 255, 255);" class=""><span style="font-size: 14px;" class=""><span style="font-variant-ligatures: no-common-ligatures;" class="">srun maker </span><span style="font-variant-ligatures: no-common-ligatures; color: rgb(205, 121, 35);" class="">></span><span style="font-variant-ligatures: no-common-ligatures;" class=""> maker_small_PARALLEL</span></span></div></div></div><div class=""><span style="font-size: 14px;" class=""><br class=""></span></div><div class=""><span style="font-size: 14px;" class="">This launches the correct number of MAKER processes across nodes but we’re seeing messages in the output </span><span style="font-size: 14px; caret-color: rgb(47, 57, 65); color: rgb(47, 57, 65); background-color: rgb(255, 255, 255);" class="">"WARNING: Multiple MAKER processes have been started in the same directory.</span><font color="#2f3941" style="font-size: 14px;" class="">” The processes appear to run ok, but we want to make sure there’s nothing fundamentally wrong with how we run MAKER.</font></div><div class=""><span style="caret-color: rgb(47, 57, 65); color: rgb(47, 57, 65); background-color: rgb(255, 255, 255); font-size: 14px;" class=""><br class=""></span></div><div class=""><span style="background-color: rgb(255, 255, 255);" class=""><font color="#2f3941" class=""><span style="font-size: 14px;" class="">Browsing the mailing list, I came across similar posts and it was suggested that there’s an issue either with the MAKER MPI configuration or with the scheduler. We’re positive that the scheduler is configured properly since many other MPI applications run without problems on the cluster with the same scheduler and MPI implementation. </span></font></span></div><div style="margin: 0px; font-stretch: normal; line-height: normal; background-color: rgb(255, 255, 255);" class=""><span style="font-variant-ligatures: no-common-ligatures; font-size: 14px;" class=""><br class=""></span></div><div style="margin: 0px; font-stretch: normal; line-height: normal; background-color: rgb(255, 255, 255);" class=""><span style="font-variant-ligatures: no-common-ligatures; font-size: 14px;" class="">Is it possible that launching MAKER processes via srun is not supported? Or is the warning harmless and can be ignored?</span></div><div style="margin: 0px; font-stretch: normal; line-height: normal; background-color: rgb(255, 255, 255);" class=""><span style="font-variant-ligatures: no-common-ligatures; font-size: 14px;" class=""><br class=""></span></div><div style="margin: 0px; font-stretch: normal; line-height: normal; background-color: rgb(255, 255, 255);" class=""><span style="font-variant-ligatures: no-common-ligatures; font-size: 14px;" class="">Thanks,</span></div><div style="margin: 0px; font-stretch: normal; line-height: normal; background-color: rgb(255, 255, 255);" class=""><span style="font-variant-ligatures: no-common-ligatures; font-size: 14px;" class="">Karsten</span></div><div style="margin: 0px; font-stretch: normal; line-height: normal; background-color: rgb(255, 255, 255);" class=""><span style="font-variant-ligatures: no-common-ligatures; font-size: 14px;" class=""><br class=""></span></div><div style="margin: 0px; font-stretch: normal; line-height: normal; background-color: rgb(255, 255, 255);" class=""><span style="font-variant-ligatures: no-common-ligatures; font-size: 14px;" class="">—</span></div><div style="margin: 0px; font-stretch: normal; line-height: normal; background-color: rgb(255, 255, 255);" class=""><span style="font-variant-ligatures: no-common-ligatures; font-size: 14px;" class=""><br class=""></span></div><div style="margin: 0px; font-stretch: normal; line-height: normal; background-color: rgb(255, 255, 255);" class=""><span style="font-variant-ligatures: no-common-ligatures; font-size: 14px;" class="">Karsten Siller</span></div><div style="margin: 0px; font-stretch: normal; line-height: normal; background-color: rgb(255, 255, 255);" class=""><span style="font-size: 14px;" class="">University of Virginia</span></div><div class=""><br class=""></div><div class=""><br class=""></div></body></html>