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The issue is here configure: 31815: /Users/danyangsu/Soft/PETSc/petsc-3. 20. 5/macos-gnu-opt/bin/mpif90 -o conftest -I. -ffree-line-length-none -ffree-line-length-0 -Wno-lto-type-mismatch -g -O -fallow-argument-mismatch conftest. f90 -ldl -lm >&5ld:
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<meta http-equiv="content-type" content="text/html; charset=utf-8"></head><body style="overflow-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;"><div><br></div> The issue is here<div><br></div><div><div>configure:31815: /Users/danyangsu/Soft/PETSc/petsc-3.20.5/macos-gnu-opt/bin/mpif90 -o conftest -I. -ffree-line-length-none -ffree-line-length-0 -Wno-lto-type-mismatch -g -O -fallow-argument-mismatch conftest.f90 -ldl -lm >&5</div><div>ld: warning: -commons use_dylibs is no longer supported, using error treatment instead</div><div>ld: common symbol '_mpifcmb5_' from '/private/var/folders/jm/wcm4mv8s3v1gqz383tcf_4c00000gp/T/ccqBB7yf.o' conflicts with definition from dylib '_mpifcmb5_' from '/Users/danyangsu/Soft/PETSc/petsc-3.20.5/macos-gnu-opt/lib/libmpifort.12.dylib'</div><div><br></div><div>Perhaps someone has the fix. </div><div><br><blockquote type="cite"><div>On Jun 11, 2024, at 9:05 PM, Danyang Su <danyang.su@gmail.com> wrote:</div><br class="Apple-interchange-newline"><div><meta charset="UTF-8"><div dir="ltr" id="pfptBanneralse7n1" style="color-scheme: revert !important; 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border-start-start-radius: unset !important; inset: unset !important; contain-intrinsic-block-size: unset !important; contain-intrinsic-size: unset !important; contain-intrinsic-inline-size: unset !important; height: unset !important; inline-size: unset !important; inset-block: unset !important; inset-inline: unset !important; margin-block: unset !important; margin: unset !important; margin-inline: unset !important; max-block-size: unset !important; max-height: unset !important; max-inline-size: unset !important; max-width: unset !important; min-block-size: unset !important; min-height: unset !important; min-inline-size: unset !important; min-width: unset !important; overscroll-behavior-block: unset !important; overscroll-behavior-inline: unset !important; overscroll-behavior: unset !important; padding-block: unset !important; padding: unset !important; padding-inline: unset !important; scroll-margin-block: unset !important; scroll-margin: unset !important; scroll-margin-inline: unset !important; scroll-padding-block: unset !important; scroll-padding: unset !important; scroll-padding-inline: unset !important; width: unset !important;">This Message Is From an External Sender</div><div id="pfptBanneralse7n1" style="color-scheme: unset !important; writing-mode: unset !important; -webkit-ruby-position: unset !important; font-family: Arial, sans-serif !important; font-feature-settings: unset !important; font-kerning: unset !important; font-optical-sizing: unset !important; font-palette: unset !important; font-size: 12px !important; font-size-adjust: unset !important; font-stretch: unset !important; font-style: unset !important; font-synthesis-small-caps: unset !important; font-synthesis-style: unset !important; font-synthesis-weight: unset !important; font-variant-alternates: unset !important; font-variant-caps: unset !important; font-variant-east-asian: unset !important; font-variant-ligatures: unset !important; font-variant-numeric: unset !important; font-variant-position: unset !important; 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-webkit-text-security: unset !important; -webkit-text-stroke-color: unset !important; -webkit-text-stroke-width: unset !important; -webkit-user-drag: unset !important; -webkit-user-modify: unset !important; -webkit-user-select: unset !important; word-spacing: unset !important; background-clip: unset !important; background-origin: unset !important; box-shadow: unset !important; mask-composite: unset !important; mask-mode: unset !important; text-combine-upright: unset !important; -webkit-backdrop-filter: unset !important; -webkit-background-clip: unset !important; -webkit-background-origin: unset !important; -webkit-box-shadow: unset !important; mask-size: unset !important; -webkit-mask: unset !important; -webkit-mask-composite: unset !important; -webkit-mask-source-type: unset !important; -webkit-text-combine: unset !important; display: block !important; visibility: visible !important; opacity: unset !important; background-color: rgb(208, 216, 220) !important; block-size: unset !important; border-block: unset !important; border-radius: unset !important; border-end-end-radius: unset !important; border-end-start-radius: unset !important; border-inline: unset !important; border-start-end-radius: unset !important; border-start-start-radius: unset !important; inset: unset !important; contain-intrinsic-block-size: unset !important; contain-intrinsic-size: unset !important; contain-intrinsic-inline-size: unset !important; height: unset !important; inline-size: unset !important; inset-block: unset !important; inset-inline: unset !important; margin-block: unset !important; margin-bottom: unset !important; margin-inline: unset !important; margin-left: unset !important; margin-right: unset !important; max-block-size: unset !important; max-height: unset !important; max-inline-size: unset !important; max-width: unset !important; min-block-size: unset !important; min-height: unset !important; min-inline-size: unset !important; min-width: unset !important; overscroll-behavior-block: unset !important; overscroll-behavior-inline: unset !important; overscroll-behavior: unset !important; padding-block: unset !important; padding: unset !important; padding-inline: unset !important; scroll-margin-block: unset !important; scroll-margin: unset !important; scroll-margin-inline: unset !important; scroll-padding-block: unset !important; scroll-padding: unset !important; scroll-padding-inline: unset !important; width: unset !important; margin-top: 2px !important;">This message came from outside your organization.</div></div><div style="height: 0px; clear: both !important; display: block !important; visibility: hidden !important; line-height: 0 !important; font-size: 0.01px !important;"></div></div><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: 400; 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; font-size: 12pt; font-family: Calibri, sans-serif;"><span style="font-size: 11pt;"></span><span lang="EN-US" style="font-size: 11pt;">Dear All,<o:p></o:p></span></div><div style="margin: 0cm; font-size: 12pt; font-family: Calibri, sans-serif;"><span lang="EN-US" style="font-size: 11pt;"><o:p> </o:p></span></div><div style="margin: 0cm; font-size: 12pt; font-family: Calibri, sans-serif;"><span lang="EN-US" style="font-size: 11pt;">I recently upgraded my MacOS to Sonoma and found some issue in PETSc configuration, which does not occur before. The main issue is from hdf5 fortran binding. It’s more likely something is broken after system upgrade, but not clear which part.<o:p></o:p></span></div><div style="margin: 0cm; font-size: 12pt; font-family: Calibri, sans-serif;"><span style="font-size: 11pt;"><o:p> </o:p></span></div><div style="margin: 0cm; font-size: 12pt; font-family: Calibri, sans-serif;"><span style="font-size: 11pt;">Any suggestions?<o:p></o:p></span></div><div style="margin: 0cm; font-size: 12pt; font-family: Calibri, sans-serif;"><span style="font-size: 11pt;"><o:p> </o:p></span></div><div style="margin: 0cm; font-size: 12pt; font-family: Calibri, sans-serif;"><span style="font-size: 11pt;">Thanks and regards,<o:p></o:p></span></div><div style="margin: 0cm; font-size: 12pt; font-family: Calibri, sans-serif;"><span style="font-size: 11pt;"><o:p> </o:p></span></div><div style="margin: 0cm; font-size: 12pt; font-family: Calibri, sans-serif;"><span style="font-size: 11pt;">Danyang<o:p></o:p></span></div></div><span id="cid:8F7872C3-DAE1-4941-A948-D803CC7859C8"><configure.log></span></div></blockquote></div><br></div></body></html>