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<p class="MsoNormal"><span style="mso-fareast-language:EN-US">Hi again,<o:p></o:p></span></p>
<p class="MsoNormal"><span style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">Please find below the output from a run of the problematic command with valgrind (note that ainput data (points) are stored in PostGIS (v.external)).<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">Hope that helps to shed some light…<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">Cheers<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">Stefan<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">valgrind --leak-check=yes v.select ainput=grid100
<a href="mailto:binput=landNorway@u_torkild.tveraa">binput=landNorway</a> output=testNorwayGrid<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52CE187: ??? (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52E02D4: ??? (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52E0537: G_fopen_old (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x4E63A88: ??? (in /usr/lib/grass76/lib/libgrass_vector.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x4E64247: Vect_read_dblinks (in /usr/lib/grass76/lib/libgrass_vector.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x4E795CA: Vect__open_old (in /usr/lib/grass76/lib/libgrass_vector.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x4E79DE0: Vect_open_old2 (in /usr/lib/grass76/lib/libgrass_vector.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x402B96: main (in /usr/lib/grass76/bin/v.select)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217==
<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== 35 bytes in 2 blocks are definitely lost in loss record 80 of 219<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== at 0x4C2DB8F: malloc (in /usr/lib/valgrind/vgpreload_memcheck-amd64-linux.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52C6BCE: G__malloc (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52F2222: G_store (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52CE187: ??? (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52E02D4: ??? (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52E0537: G_fopen_old (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x4E799F5: Vect__open_old (in /usr/lib/grass76/lib/libgrass_vector.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x4E79DE0: Vect_open_old2 (in /usr/lib/grass76/lib/libgrass_vector.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x402B96: main (in /usr/lib/grass76/bin/v.select)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217==
<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== 122 bytes in 2 blocks are definitely lost in loss record 137 of 219<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== at 0x4C2DB8F: malloc (in /usr/lib/valgrind/vgpreload_memcheck-amd64-linux.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52C6BCE: G__malloc (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52F2222: G_store (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52F295E: G_tempfile_pid (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x5F37144: dig_spidx_init (in /usr/lib/grass76/lib/libgrass_dig2.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x4E78541: Vect_open_sidx (in /usr/lib/grass76/lib/libgrass_vector.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x4E79461: Vect__open_old (in /usr/lib/grass76/lib/libgrass_vector.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x4E79DE0: Vect_open_old2 (in /usr/lib/grass76/lib/libgrass_vector.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x402B96: main (in /usr/lib/grass76/bin/v.select)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217==
<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== 122 bytes in 2 blocks are definitely lost in loss record 138 of 219<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== at 0x4C2DB8F: malloc (in /usr/lib/valgrind/vgpreload_memcheck-amd64-linux.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52C6BCE: G__malloc (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52F2222: G_store (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52F295E: G_tempfile_pid (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x5F3717A: dig_spidx_init (in /usr/lib/grass76/lib/libgrass_dig2.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x4E78541: Vect_open_sidx (in /usr/lib/grass76/lib/libgrass_vector.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x4E79461: Vect__open_old (in /usr/lib/grass76/lib/libgrass_vector.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x4E79DE0: Vect_open_old2 (in /usr/lib/grass76/lib/libgrass_vector.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x402B96: main (in /usr/lib/grass76/bin/v.select)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217==
<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== 122 bytes in 2 blocks are definitely lost in loss record 139 of 219<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== at 0x4C2DB8F: malloc (in /usr/lib/valgrind/vgpreload_memcheck-amd64-linux.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52C6BCE: G__malloc (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52F2222: G_store (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52F295E: G_tempfile_pid (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x5F371B0: dig_spidx_init (in /usr/lib/grass76/lib/libgrass_dig2.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x4E78541: Vect_open_sidx (in /usr/lib/grass76/lib/libgrass_vector.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x4E79461: Vect__open_old (in /usr/lib/grass76/lib/libgrass_vector.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x4E79DE0: Vect_open_old2 (in /usr/lib/grass76/lib/libgrass_vector.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x402B96: main (in /usr/lib/grass76/bin/v.select)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217==
<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== 122 bytes in 2 blocks are definitely lost in loss record 140 of 219<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== at 0x4C2DB8F: malloc (in /usr/lib/valgrind/vgpreload_memcheck-amd64-linux.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52C6BCE: G__malloc (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52F2222: G_store (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52F295E: G_tempfile_pid (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x5F371E6: dig_spidx_init (in /usr/lib/grass76/lib/libgrass_dig2.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x4E78541: Vect_open_sidx (in /usr/lib/grass76/lib/libgrass_vector.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x4E79461: Vect__open_old (in /usr/lib/grass76/lib/libgrass_vector.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x4E79DE0: Vect_open_old2 (in /usr/lib/grass76/lib/libgrass_vector.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x402B96: main (in /usr/lib/grass76/bin/v.select)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217==
<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== 168 (96 direct, 72 indirect) bytes in 2 blocks are definitely lost in loss record 150 of 219<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== at 0x4C2DB8F: malloc (in /usr/lib/valgrind/vgpreload_memcheck-amd64-linux.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x52C6BCE: G__malloc (in /usr/lib/grass76/lib/libgrass_gis.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x4E64879: Vect_get_dblink (in /usr/lib/grass76/lib/libgrass_vector.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x4E64BC3: Vect_get_field_number (in /usr/lib/grass76/lib/libgrass_vector.7.6.0.so)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== by 0x402BB9: main (in /usr/lib/grass76/bin/v.select)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217==
<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== LEAK SUMMARY:<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== definitely lost: 964 bytes in 39 blocks<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== indirectly lost: 72 bytes in 10 blocks<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== possibly lost: 79 bytes in 4 blocks<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== still reachable: 9,025,026,330 bytes in 188,201,312 blocks<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== of which reachable via heuristic:<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== newarray : 488,856 bytes in 20,369 blocks<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US">==13217== suppressed: 0 bytes in 0 blocks<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US"><o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="mso-fareast-language:EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><b><span lang="EN-US">From:</span></b><span lang="EN-US"> Markus Metz <markus.metz.giswork@gmail.com>
<br>
<b>Sent:</b> lørdag 19. januar 2019 22:17<br>
<b>To:</b> Stefan Blumentrath <Stefan.Blumentrath@nina.no><br>
<b>Cc:</b> Markus Neteler <neteler@osgeo.org>; GRASS developers list (grass-dev@lists.osgeo.org) <grass-dev@lists.osgeo.org><br>
<b>Subject:</b> Re: [GRASS-dev] v.select: increasing memory consumption<o:p></o:p></span></p>
<p class="MsoNormal"><o:p> </o:p></p>
<div>
<p class="MsoNormal"><br>
<br>
On Fri, Jan 18, 2019 at 8:29 AM Stefan Blumentrath <<a href="mailto:Stefan.Blumentrath@nina.no">Stefan.Blumentrath@nina.no</a>> wrote:<br>
><br>
> THanks, we`ll try and report back.<br>
><br>
> -----Original Message-----<br>
> From: Markus Neteler <<a href="mailto:neteler@osgeo.org">neteler@osgeo.org</a>><br>
> Sent: fredag 18. januar 2019 07:52<br>
> To: Stefan Blumentrath <<a href="mailto:Stefan.Blumentrath@nina.no">Stefan.Blumentrath@nina.no</a>><br>
> Cc: GRASS developers list (<a href="mailto:grass-dev@lists.osgeo.org">grass-dev@lists.osgeo.org</a>) <<a href="mailto:grass-dev@lists.osgeo.org">grass-dev@lists.osgeo.org</a>><br>
> Subject: Re: [GRASS-dev] v.select: increasing memory consumption<br>
><br>
> Hi,<br>
><br>
> On Thu, Jan 17, 2019 at 2:11 PM Stefan Blumentrath <<a href="mailto:Stefan.Blumentrath@nina.no">Stefan.Blumentrath@nina.no</a>> wrote:<br>
> ><br>
> > Dear all,<br>
> ><br>
> > A colleague of mine just experienced that v.select in GRASS 7.4.3 (from UbuntuGIS) did not stop allocating memory until the server (Ubuntu 16.04) almost died and he killed the process.<br>
> ><br>
> > Is that a bug or would v.select have stopped allocating memory at some point before the system gets unusable? Or is this something the user should take care of? If I remember correctly there is a “LOW_MEM option” for v.in.ogr would such a thing be needed
here to.<br>
> ><br>
> > In a multi-user environment this can be a bit tricky…<br>
><br>
> yeah!<br>
><br>
> > Any hints? Should I open a ticket (probably hard to reproduce with small test-dataset)?<br>
><br>
> Please re-run the job with "valgrind", see<br>
><br>
> <a href="https://grasswiki.osgeo.org/wiki/GRASS_Debugging#Using_Valgrind">https://grasswiki.osgeo.org/wiki/GRASS_Debugging#Using_Valgrind</a><br>
><o:p></o:p></p>
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<p class="MsoNormal">> That will give insights about potential memory leaks. He/you may CTRL-C it on the way to keep the server alive.<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">A simple run fo v.select with valgrind does not show any memory leak (increase of memory consumption within a loop). Can you provide the test command and ideally also the data causing the problem? That would help with debugging.<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">Markus M<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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