<html><head><meta http-equiv="Content-Type" content="text/html; charset=us-ascii"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">Hi Barry,<br><br>The HDF5 calls fail. I reconfigure PETSc with HDF 1.10.5 version and it works fine on different platforms. So, it is more likely there is a bug in the latest HDF version.<br><br>Thanks.<br><br>All the best,<br><br>Danyang<br><br><br><br><div class="gmail_quote">On June 11, 2020 5:58:28 a.m. PDT, Barry Smith <bsmith@petsc.dev> wrote:<blockquote class="gmail_quote" style="margin: 0pt 0pt 0pt 0.8ex; border-left: 1px solid rgb(204, 204, 204); padding-left: 1ex;">
<div class=""><br class=""></div> Are you making HDF5 calls that fail or is it PETSc routines calling HDF5 that fail? <div class=""><br class=""></div><div class=""> Regardless it sounds like the easiest fix is to switch back to the previous HDF5 and wait for HDF5 to fix what sounds to be a bug.</div><div class=""><br class=""></div><div class=""> Barry</div><div class=""><br class=""><div><br class=""><blockquote type="cite" class=""><div class="">On Jun 11, 2020, at 1:05 AM, Danyang Su <<a href="mailto:danyang.su@gmail.com" class="">danyang.su@gmail.com</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div class="WordSection1" style="page: WordSection1; caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 18px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;"><div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class=""><span lang="EN-US" class="">Hi All,</span><o:p class=""></o:p></div><div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class=""><span lang="EN-US" class=""> <o:p class=""></o:p></span></div><div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class=""><span lang="EN-US" class="">Sorry to send the previous incomplete email accidentally.<span class="Apple-converted-space"> </span></span><span lang="EN-US" class=""><o:p class=""></o:p></span></div><div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class=""><o:p class=""> </o:p></div><div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class=""><span lang="EN-US" class="">After updating to HDF5-1.12.0, I got some problem if some processors have no data to write or not necessary to write. Since parallel writing is collective, I cannot disable those processors from writing. For the old version, there seems no such problem. So far, the problem only occurs on Linux using GNU compiler. The same code has no problem using intel compiler or latest gnu compiler on MacOS.<span class="Apple-converted-space"> </span><o:p class=""></o:p></span></div><div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class=""><o:p class=""> </o:p></div><div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">I have already included h5sselect_none in the code for those processors without data. But it does not take effect. The problem is<span lang="EN-US" class=""><span class="Apple-converted-space"> </span>documented in the following link (How do you write data when one process doesn't have or need to write data ?).</span><o:p class=""></o:p></div><div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class=""><span lang="EN-US" class=""> </span><a href="https://support.hdfgroup.org/HDF5/hdf5-quest.html#par-nodata" style="color: rgb(5, 99, 193); text-decoration: underline;" class=""><span style="color: blue;" class="">https://support.hdfgroup.org/HDF5/hdf5-quest.html#par-nodata</span></a><o:p class=""></o:p></div><div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class=""><o:p class=""> </o:p></div><div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">Similar problem has also been reported on HDF Forum by others.<o:p class=""></o:p></div><div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class=""><a href="https://forum.hdfgroup.org/t/bug-on-hdf5-1-12-0-fortran-parallel/6864" style="color: rgb(5, 99, 193); text-decoration: underline;" class="">https://forum.hdfgroup.org/t/bug-on-hdf5-1-12-0-fortran-parallel/6864</a><o:p class=""></o:p></div><div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class=""><o:p class=""> </o:p></div><div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">Any suggestion for that?<o:p class=""></o:p></div><div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class=""><o:p class=""> </o:p></div><div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">Thanks,<o:p class=""></o:p></div><div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class=""><o:p class=""> </o:p></div><div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">Danyang</div></div></div></blockquote></div><br class=""></div></blockquote></div><br>-- <br>Sent from my Android device with K-9 Mail. Please excuse my brevity.</body></html>