<!-- BaNnErBlUrFlE-BoDy-start -->
<!-- Preheader Text : BEGIN -->
<div style="display:none !important;display:none;visibility:hidden;mso-hide:all;font-size:1px;color:#ffffff;line-height:1px;height:0px;max-height:0px;opacity:0;overflow:hidden;">
Thanks for the feedback. I did do the git submodules init and update and see the .h file in the autoperf submodules dir. I'll try the pypi approach and let you know how it goes. Thanks. From: Snyder, Shane <ssnyder@ mcs. anl. gov> Sent:
</div>
<!-- Preheader Text : END -->
<!-- Email Banner : BEGIN -->
<div style="display:none !important;display:none;visibility:hidden;mso-hide:all;font-size:1px;color:#ffffff;line-height:1px;height:0px;max-height:0px;opacity:0;overflow:hidden;">ZjQcmQRYFpfptBannerStart</div>
<!--[if ((ie)|(mso))]>
<table border="0" cellspacing="0" cellpadding="0" width="100%" style="padding: 16px 0px 16px 0px; direction: ltr" ><tr><td>
<table border="0" cellspacing="0" cellpadding="0" style="padding: 0px 10px 5px 6px; width: 100%; border-radius:4px; border-top:4px solid #90a4ae;background-color:#D0D8DC;"><tr><td valign="top">
<table align="left" border="0" cellspacing="0" cellpadding="0" style="padding: 4px 8px 4px 8px">
<tr><td style="color:#000000; font-family: 'Arial', sans-serif; font-weight:bold; font-size:14px; direction: ltr">
This Message Is From an External Sender
</td></tr>
<tr><td style="color:#000000; font-weight:normal; font-family: 'Arial', sans-serif; font-size:12px; direction: ltr">
This message came from outside your organization.
</td></tr>
</table>
</td></tr></table>
</td></tr></table>
<![endif]-->
<![if !((ie)|(mso))]>
<div dir="ltr" id="pfptBanner5emywgz" style="all: revert !important; display:block !important; text-align: left !important; margin:16px 0px 16px 0px !important; padding:8px 16px 8px 16px !important; border-radius: 4px !important; min-width: 200px !important; background-color: #D0D8DC !important; background-color: #D0D8DC; border-top: 4px solid #90a4ae !important; border-top: 4px solid #90a4ae;">
<div id="pfptBanner5emywgz" style="all: unset !important; float:left !important; display:block !important; margin: 0px 0px 1px 0px !important; max-width: 600px !important;">
<div id="pfptBanner5emywgz" style="all: unset !important; display:block !important; visibility: visible !important; background-color: #D0D8DC !important; color:#000000 !important; color:#000000; font-family: 'Arial', sans-serif !important; font-family: 'Arial', sans-serif; font-weight:bold !important; font-weight:bold; font-size:14px !important; line-height:18px !important; line-height:18px">
This Message Is From an External Sender
</div>
<div id="pfptBanner5emywgz" style="all: unset !important; display:block !important; visibility: visible !important; background-color: #D0D8DC !important; color:#000000 !important; color:#000000; font-weight:normal; font-family: 'Arial', sans-serif !important; font-family: 'Arial', sans-serif; font-size:12px !important; line-height:18px !important; line-height:18px; margin-top:2px !important;">
This message came from outside your organization.
</div>
</div>
<div style="clear: both !important; display: block !important; visibility: hidden !important; line-height: 0 !important; font-size: 0.01px !important; height: 0px"> </div>
</div>
<![endif]>
<div style="display:none !important;display:none;visibility:hidden;mso-hide:all;font-size:1px;color:#ffffff;line-height:1px;height:0px;max-height:0px;opacity:0;overflow:hidden;">ZjQcmQRYFpfptBannerEnd</div>
<!-- Email Banner : END -->
<!-- BaNnErBlUrFlE-BoDy-end -->
<html>
<head><!-- BaNnErBlUrFlE-HeAdEr-start -->
<style>
#pfptBanner5emywgz { all: revert !important; display: block !important;
visibility: visible !important; opacity: 1 !important;
background-color: #D0D8DC !important;
max-width: none !important; max-height: none !important }
.pfptPrimaryButton5emywgz:hover, .pfptPrimaryButton5emywgz:focus {
background-color: #b4c1c7 !important; }
.pfptPrimaryButton5emywgz:active {
background-color: #90a4ae !important; }
</style>
<!-- BaNnErBlUrFlE-HeAdEr-end -->
<meta http-equiv="Content-Type" content="text/html; charset=utf-8">
</head>
<body>
<div dir="auto">Thanks for the feedback. </div>
<div dir="auto"><br>
</div>
<div dir="auto">I did do the git submodules init and update and see the .h file in the autoperf submodules dir. </div>
<div dir="auto"><br>
</div>
<div dir="auto">I'll try the pypi approach and let you know how it goes. </div>
<div dir="auto"><br>
</div>
<div dir="auto">Thanks. </div>
<hr style="display:inline-block;width:98%" tabindex="-1">
<div id="divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" style="font-size:11pt" color="#000000"><b>From:</b> Snyder, Shane <ssnyder@mcs.anl.gov><br>
<b>Sent:</b> Tuesday, July 16, 2024 11:08:21 AM<br>
<b>To:</b> Robinson, John-Paul <jpr@uab.edu>; darshan-users@lists.mcs.anl.gov <darshan-users@lists.mcs.anl.gov><br>
<b>Subject:</b> Re: trouble running pyDarshan on laptop</font>
<div> </div>
</div>
<style type="text/css" style="display:none">
<!--
p
{margin-top:0;
margin-bottom:0}
-->
</style>
<div dir="ltr">
<table border="0" cellspacing="0" cellpadding="0" width="100%" align="left" style="border:0; display:table; width:100%; table-layout:fixed; border-collapse:seperate; float:none">
<tbody style="display:block">
<tr>
<td valign="middle" width="1px" bgcolor="#A6A6A6" cellpadding="7px 2px 7px 2px" style="padding:7px 2px 7px 2px; background-color:#A6A6A6">
</td>
<td valign="middle" width="100%" bgcolor="#EAEAEA" cellpadding="7px 5px 7px 15px" color="#212121" style="width:100%; background-color:#EAEAEA; padding:7px 5px 7px 15px; font-family:wf_segoe-ui_normal,Segoe UI,Segoe WP,Tahoma,Arial,sans-serif; font-size:12px; font-weight:normal; color:#212121; text-align:left; word-wrap:break-word">
<div>You don't often get email from ssnyder@mcs.anl.gov. <a href="https://urldefense.us/v3/__https://aka.ms/LearnAboutSenderIdentification__;!!G_uCfscf7eWS!enrS0CzbdO04kvHm0LDfGLvHxZl9lb0qMjFrZIux3XydKVQvrJlItx4zmephHSKIp_b4uumWpt5CdbeEoCCa8Tk$">
Learn why this is important</a></div>
</td>
<td valign="middle" align="left" width="75px" bgcolor="#EAEAEA" cellpadding="7px 5px 7px 5px" color="#212121" style="width:75px; background-color:#EAEAEA; padding:7px 5px 7px 5px; font-family:wf_segoe-ui_normal,Segoe UI,Segoe WP,Tahoma,Arial,sans-serif; font-size:12px; font-weight:normal; color:#212121; text-align:left; word-wrap:break-word">
</td>
</tr>
</tbody>
</table>
<div>
<div class="x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
Hi,</div>
<div class="x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
<br>
</div>
<div class="x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
The AutoPerf modules are actually provided as git submodules in Darshan, so there's an additional step you'll need to run from the repo:
<code>git submodule update --init</code></div>
<div class="x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
<br>
</div>
<div class="x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
FWIW, unless you're modifying PyDarshan code or running on a system that we don't provide wheels for, I'd recommend just installing PyDarshan straight from PyPI rather than trying to install it from source (i.e., just
<code>pip install darshan</code> in your venv). There are some strange quirks with things like the AutoPerf modules as you've found, but we make sure all of that stuff is properly built inside of the wheels we provide.</div>
<div class="x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
<br>
</div>
<div class="x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
Thanks,</div>
<div class="x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
--Shane</div>
<div id="x_appendonsend"></div>
<hr tabindex="-1" style="display:inline-block; width:98%">
<div id="x_divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" color="#000000" style="font-size:11pt"><b>From:</b> Darshan-users <darshan-users-bounces@lists.mcs.anl.gov> on behalf of Robinson, John-Paul <jpr@uab.edu><br>
<b>Sent:</b> Tuesday, July 16, 2024 10:04 AM<br>
<b>To:</b> darshan-users@lists.mcs.anl.gov <darshan-users@lists.mcs.anl.gov><br>
<b>Subject:</b> [Darshan-users] trouble running pyDarshan on laptop</font>
<div> </div>
</div>
<div>
<div style="display:none!important; display:none; visibility:hidden; font-size:1px; color:#ffffff; line-height:1px; height:0px; max-height:0px; opacity:0; overflow:hidden">
Hi I'm trying to use pyDardshan on my laptop to analyze logs from Polaris. I've successfully built and installed darshan-util and the pydarshan from a cloned repo. ./prepare. sh cd darshan-util/ ./configure --prefix ~/. local --enable-pydarshan
</div>
<div style="display:none!important; display:none; visibility:hidden; font-size:1px; color:#ffffff; line-height:1px; height:0px; max-height:0px; opacity:0; overflow:hidden">
ZjQcmQRYFpfptBannerStart</div>
<div dir="ltr" id="x_x_pfptBannerghpberl" style="display:block!important; text-align:left!important; margin:16px 0px 16px 0px!important; padding:8px 16px 8px 16px!important; border-radius:4px!important; min-width:200px!important; background-color:#D0D8DC!important; background-color:#D0D8DC; border-top:4px solid #90a4ae!important; border-top:4px solid #90a4ae">
<div id="x_x_pfptBannerghpberl" style="float:left!important; display:block!important; margin:0px 0px 1px 0px!important; max-width:600px!important">
<div id="x_x_pfptBannerghpberl" style="display:block!important; visibility:visible!important; background-color:#D0D8DC!important; color:#000000!important; color:#000000; font-family:'Arial',sans-serif!important; font-family:'Arial',sans-serif; font-weight:bold!important; font-weight:bold; font-size:14px!important; line-height:18px!important; line-height:18px">
This Message Is From an External Sender </div>
<div id="x_x_pfptBannerghpberl" style="display:block!important; visibility:visible!important; background-color:#D0D8DC!important; color:#000000!important; color:#000000; font-weight:normal; font-family:'Arial',sans-serif!important; font-family:'Arial',sans-serif; font-size:12px!important; line-height:18px!important; line-height:18px; margin-top:2px!important">
This message came from outside your organization. </div>
</div>
<div style="clear:both!important; display:block!important; visibility:hidden!important; line-height:0!important; font-size:0.01px!important; height:0px">
</div>
</div>
<div style="display:none!important; display:none; visibility:hidden; font-size:1px; color:#ffffff; line-height:1px; height:0px; max-height:0px; opacity:0; overflow:hidden">
ZjQcmQRYFpfptBannerEnd</div>
<style>
<!--
#x_x_pfptBannerghpberl
{display:block!important;
visibility:visible!important;
opacity:1!important;
background-color:#D0D8DC!important;
max-width:none!important;
max-height:none!important}
-->
</style><style type="text/css" style="display:none">
<!--
p
{margin-top:0;
margin-bottom:0}
-->
</style>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
Hi</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
<br>
</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
I'm trying to use pyDardshan on my laptop to analyze logs from Polaris. I've successfully built and installed darshan-util and the pydarshan from a cloned repo.</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
<br>
</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
./prepare.sh</div>
<div style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
cd darshan-util/</div>
<div style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
./configure --prefix ~/.local --enable-pydarshan</div>
<div style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
make</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
make install</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
<br>
</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
Followed by installing the module into my virtual environment.</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
<br>
</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
cd pydarshon</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
pip install .</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
<br>
</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
When I import darshan and then try to run "report = darshan.DarshanReport(filename, read_all=True)" where filename is one of my Polaris darshan logs I get an error message about APMPI (one of the modules used to generate the darshan log).</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
<br>
</div>
<pre><div style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">File ~/projects/presto/venv/lib/python3.10/site-packages/darshan/report.py:753, in DarshanReport.mod_read_all_apmpi_records(self, mod, dtype, warnings)
749 self.counters[mod] = {}
751 # fetch records
752 # fetch header record
--> 753 rec = backend.log_get_apmpi_record(self.log, mod, "HEADER", dtype=dtype)
754 while rec != None:
755 self.records[mod].append(rec)
AttributeError: module 'darshan.backend.cffi_backend' has no attribute 'log_get_apmpi_record'</div></pre>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
I assume this is because the module wasn't included during the darshan-util build.<br>
<br>
I'm trying to build this module into darshan-util and have added the autoperf submodule to the darshan repo. When I add --enable-apmpi-mod to the configure step above i get an error that it can't find the header.</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
<br>
</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
checking for GNU default python prefix... ${prefix}</div>
<div style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
checking for GNU default python exec_prefix... ${exec_prefix}</div>
<div style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
checking for python script directory (pythondir)... ${PYTHON_PREFIX}/lib/python3.10/site-packages</div>
<div style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
checking for python extension module directory (pyexecdir)... ${PYTHON_EXEC_PREFIX}/lib/python3.10/site-packages</div>
<div style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
checking for /home/jpr/projects/presto/darshan/darshan-util/../modules/autoperf/apmpi/darshan-apmpi-log-format.h... no</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
configure: error: The autoperf MPI module is not present</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
<br>
</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
Looking at the config.log, it seems the test is just trying to confirm the include of the header using the same path, which does exist on my laptop.</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
<br>
</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
I'm a bit stuck on how to proceed. Any hints appreciated.</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
<br>
</div>
<div class="x_x_elementToProof" style="font-family:Aptos,Aptos_EmbeddedFont,Aptos_MSFontService,Calibri,Helvetica,sans-serif; font-size:12pt; color:rgb(0,0,0)">
Thanks.</div>
</div>
</div>
</div>
</body>
</html>