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Hi Cécile,</div>
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<br>
</div>
<div dir="ltr" style="color: rgb(0, 0, 0); background-color: rgb(255, 255, 255);">
Thank you. 4pm works. I’ll send a send in a separate email.</div>
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<br>
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<div dir="ltr" style="color: rgb(0, 0, 0); background-color: rgb(255, 255, 255);">
Best,</div>
<div dir="ltr" style="color: rgb(0, 0, 0); background-color: rgb(255, 255, 255);">
Alfredo.</div>
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<div id="divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" style="font-size:11pt" color="#000000"><b>From:</b> Cecile Madjar <cecile.madjar@mcin.ca><br>
<b>Sent:</b> Tuesday, November 30, 2021 4:15:28 PM<br>
<b>To:</b> Morales Pinzon, Alfredo <AMORALESPINZON@BWH.HARVARD.EDU><br>
<b>Cc:</b> loris-dev@bic.mni.mcgill.ca <loris-dev@bic.mni.mcgill.ca>; Sridar Narayanan <sridar.narayanan@mcgill.ca>; Rozie Arnaoutelis <rozie.arnaoutelis@mcgill.ca>; Douglas Arnold, Dr. <douglas.arnold@mcgill.ca>; Guttmann, Charles,M.D. <guttmann@bwh.harvard.edu>;
Istvan Akos Imre Morocz, Dr <istvan.morocz@mcgill.ca>; Samir Das <samirdas99@gmail.com><br>
<b>Subject:</b> Re: [Loris-dev] MINC insertion</font>
<div> </div>
</div>
<div>
<p><span style="padding:3px 10px; border-radius:5px; color:#ffffff; font-weight:bold; display:inline-block; background-color:#ff0000"> External Email - Use Caution </span></p>
<p></p>
<div dir="ltr">Hi Alfredo,
<div><br>
</div>
<div>Sorry for the delay. Time flies quickly this week.</div>
<div><br>
</div>
<div>How about a Zoom call tomorrow (Wednesday) at 10:30AM or at 4PM?</div>
<div><br>
</div>
<div>Let me know if one of those times works for you.</div>
<div>Thanks!</div>
<div><br>
</div>
<div>Cécile</div>
</div>
<br>
<div class="x_gmail_quote">
<div dir="ltr" class="x_gmail_attr">On Mon, Nov 29, 2021 at 1:30 PM Morales Pinzon, Alfredo <<a href="mailto:AMORALESPINZON@bwh.harvard.edu">AMORALESPINZON@bwh.harvard.edu</a>> wrote:<br>
</div>
<blockquote class="x_gmail_quote" style="margin:0px 0px 0px 0.8ex; border-left:1px solid rgb(204,204,204); padding-left:1ex">
<div style="">Hi Cécile,
<div><br>
</div>
<div>Here is the results of the query:</div>
<div><br>
</div>
<div>===</div>
<div>
<div style="margin:0px; font-stretch:normal; font-size:13px; line-height:normal; font-family:Menlo; color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures">mysql> SELECT * FROM psc WHERE CenterID=843 \G;</span></div>
<div style="margin:0px; font-stretch:normal; font-size:13px; line-height:normal; font-family:Menlo; color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures">*************************** 1. row ***************************</span></div>
<div style="margin:0px; font-stretch:normal; font-size:13px; line-height:normal; font-family:Menlo; color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures"> CenterID: 843</span></div>
<div style="margin:0px; font-stretch:normal; font-size:13px; line-height:normal; font-family:Menlo; color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures"> Name: inf_0102</span></div>
<div style="margin:0px; font-stretch:normal; font-size:13px; line-height:normal; font-family:Menlo; color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures"> PSCArea: NULL</span></div>
<div style="margin:0px; font-stretch:normal; font-size:13px; line-height:normal; font-family:Menlo; color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures"> Address: NULL</span></div>
<div style="margin:0px; font-stretch:normal; font-size:13px; line-height:normal; font-family:Menlo; color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures"> City: NULL</span></div>
<div style="margin:0px; font-stretch:normal; font-size:13px; line-height:normal; font-family:Menlo; color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures"> StateID: NULL</span></div>
<div style="margin:0px; font-stretch:normal; font-size:13px; line-height:normal; font-family:Menlo; color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures"> ZIP: NULL</span></div>
<div style="margin:0px; font-stretch:normal; font-size:13px; line-height:normal; font-family:Menlo; color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures"> Phone1: NULL</span></div>
<div style="margin:0px; font-stretch:normal; font-size:13px; line-height:normal; font-family:Menlo; color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures"> Phone2: NULL</span></div>
<div style="margin:0px; font-stretch:normal; font-size:13px; line-height:normal; font-family:Menlo; color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures"> Contact1: NULL</span></div>
<div style="margin:0px; font-stretch:normal; font-size:13px; line-height:normal; font-family:Menlo; color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures"> Contact2: NULL</span></div>
<div style="margin:0px; font-stretch:normal; font-size:13px; line-height:normal; font-family:Menlo; color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures"> Alias: BGI</span></div>
<div style="margin:0px; font-stretch:normal; font-size:13px; line-height:normal; font-family:Menlo; color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures"> MRI_alias: BGI</span></div>
<div style="margin:0px; font-stretch:normal; font-size:13px; line-height:normal; font-family:Menlo; color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures"> Account: NULL</span></div>
<div style="margin:0px; font-stretch:normal; font-size:13px; line-height:normal; font-family:Menlo; color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures">Study_site: Y</span></div>
<div style="margin:0px; font-stretch:normal; font-size:13px; line-height:normal; font-family:Menlo; color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures">1 row in set (0.00 sec)</span></div>
</div>
<div>===</div>
<div><br>
</div>
<div>Alias and MRI_alias look fine. What should we look into now? We can debug over Zoom if that works for you.</div>
<div><br>
</div>
<div>Best,</div>
<div>Alfredo.<br>
<div><br>
<blockquote type="cite">
<div>On Nov 29, 2021, at 8:40 AM, Cecile Madjar <<a href="mailto:cecile.madjar@mcin.ca" target="_blank">cecile.madjar@mcin.ca</a>> wrote:</div>
<br>
<div>
<p><span style="padding:3px 10px; border-radius:5px; color:rgb(255,255,255); font-weight:bold; display:inline-block; background-color:rgb(255,0,0)"> External Email - Use Caution </span></p>
<div><br>
</div>
<div dir="ltr">Hi Alfredo,
<div><br>
</div>
<div>I think we are indeed narrowing where the error happens. It looks like for some reason this <a href="https://secure-web.cisco.com/1WKyW2D76xw9mcH7c3mrbUADimOSPIUAeml9rWivk7bItei0PlVHDbuGfrRpzeITWbL6b0Rr61uaOfjR-rrMpspUFVDp6AC5wXTy-v_mpx-SO9Fro3_O7WqkuAEbxZTWwVIvoAIdW5_K9PSX2xdI8_T64tIgsBc859NyIdKSuS4vJjdvc2VsaapiuHVAY8oaJ0x4ikpKSaiQocNEm2yqtX0tRI26lOCf1qGK5nam_R1310B5bXRHQRMJEmJ3EE9nx5WgxcJcOt078poMQe4krTe5X1yOWE9G3LauCi0VwvI_qoqKmqtkbU_6q0PES2OKttGDvMWpti_tEMV67ieEFVQ/https%3A%2F%2Fgithub.com%2FSPINEProject%2FLoris-MRI%2Fblob%2Fv23.0.3_IPMSA%2FuploadNeuroDB%2FNeuroDB%2FMRI.pm" target="_blank">getPSC</a>
function is returning "UNKN", 0. It might be related to the Alias or MRI_alias content of the psc table for CenterID 843.</div>
<div><br>
</div>
<div>What do you get when you run the following query?<br>
SELECT * FROM psc WHERE CenterID=843;</div>
<div><br>
</div>
<div>In the Alias or MRI_alias column, you should be able to see BGI so that the scanner candidate can be identified with the proper site.</div>
<div><br>
</div>
<div>Let me know,</div>
<div><br>
</div>
<div>Cécile</div>
</div>
<br>
<div class="x_gmail_quote">
<div dir="ltr" class="x_gmail_attr">On Sun, Nov 28, 2021 at 12:42 PM Morales Pinzon, Alfredo <<a href="mailto:AMORALESPINZON@bwh.harvard.edu" target="_blank">AMORALESPINZON@bwh.harvard.edu</a>> wrote:<br>
</div>
<blockquote class="x_gmail_quote" style="margin:0px 0px 0px 0.8ex; border-left:1px solid rgb(204,204,204); padding-left:1ex">
<div>
<div>Hi Cécile,
<div><br>
</div>
<div>Thank you, it looks like we’re getting closer to find a solution. Find the answers to your questions inline below.</div>
<div><br>
</div>
<div>Happy to debug over Zoom if it’s easier for you.</div>
<div><br>
</div>
<div>Best,</div>
<div>Alfredo.</div>
<div><br>
</div>
<div></div>
</div>
<div>
<div></div>
<div>
<div><br>
<blockquote type="cite">
<div>On Nov 26, 2021, at 3:31 PM, Cecile Madjar <<a href="mailto:cecile.madjar@mcin.ca" target="_blank">cecile.madjar@mcin.ca</a>> wrote:</div>
<br>
<div>
<p><span style="padding:3px 10px; border-radius:5px; color:rgb(255,255,255); font-weight:bold; display:inline-block; background-color:rgb(255,0,0)"> External Email - Use Caution </span></p>
<div><br>
</div>
<div dir="ltr">Hi Alfredo,
<div><br>
</div>
<div>I notice that the CenterID for the site is 0. Do you have an entry in the psc table for a CenterID=0?</div>
</div>
</div>
</blockquote>
<div><span style="white-space:pre-wrap"></span>No, we don’t have it. The CenterID starts at 1.</div>
<div><span style="white-space:pre-wrap"></span>===</div>
<div><span style="white-space:pre-wrap"></span>select * from psc where CenterID=0;</div>
<div><span style="white-space:pre-wrap"></span>Empty set (0.00 sec)</div>
<div><span style="white-space:pre-wrap"></span>===</div>
<blockquote type="cite">
<div>
<div dir="ltr">
<div><br>
The problem here is that the data comes from a new scanner and the pipeline tries to first register a new candidate for the scanner (scanner candidate) before adding an entry in the mri_scanner table. To determine the site of the scanner, the pipeline uses
the <a href="https://secure-web.cisco.com/1Dc-fajrB7Ud53q9lvqwcvWI66c8Sjd_VWPzsGJnI1xtsFo2tce71aRhvXOFAeXFyiXWHCRtrsuOUxz9FTymBxjmkO9QVm92NieBTkPQt3sHgPQQUT2j2bpLa-AQKrAp6CJLMFA3SshUHX9tSHCkDZl4-687CTtyUYa8o_QDxRn0UEiy6yqufe-DTaVIJxY2bFtGERf0kTxBUy4JaS_ZiEHYQ3uGUjy9x3F25dMV0RZ_8hv74gXSGJW3t7AJ2zm-stvAEvizinmIQrzN-OP0L0FTHPAmoHzn0NFzDCrYvCDnMCfBNCexzjhZ9JcsQSpQS_LK_oW8UEy8ObHNoEsbzKA/https%3A%2F%2Fgithub.com%2FSPINEProject%2FLoris-MRI%2Fblob%2F19f469cce904ebe93ba5f641533e4c0ef39fadab%2FuploadNeuroDB%2FNeuroDB%2FMRIProcessingUtility.pm%23L503" target="_blank">
determinePSC</a> function of MRIProcessingUtility.pm (called by <a href="http://secure-web.cisco.com/1AcpksGPD0fcXlGw-72nF5bIorKsi2a9cDq7Wv-13LsJ3nMgtSqaBUK52_TDPgdnaR31cAXitmHZBROzlbUzVSLt7NNfNUEoLAzoVzQxbeMcKgKRPZKB5buA54ELuCzLsaxCmaICUrqPr9kBNY64H9sQ07LVj_j4VK-Nhmk1d8H6bVa4T3fXZ2LnHlBqWGLRwsp6j2TPPyxS2PtujnfjzbAbVIaLJuxAOYmjNJPE15dPo8Mfm_XBeAuFgKDQBx78EgSHLn5oS5e9hHqPLghSbr_gClpiauYIGe2TzPPrTwRO-bQh8hPTQ2rcHfkITL3as/http%3A%2F%2Fminc_insertion.pl" target="_blank">
minc_insertion.pl</a> in <a href="https://secure-web.cisco.com/1UWbEiJQk9qeievujOxfe9vFYw_u8x2SaJKAYzS6WrKuX-cWcA62bpRkJ-fOL-6hCS2oSzF8ye-G99zRPL7lv-ggMi48rbGxbcOhqRu-S7FGWEZpc-vb_j_YA73XsG7Od4qBB98i5AMLyLXi5SZAwP5E_nbdjI626BeW24SmnD6Hd_MocuW8oOqNs4mTZSGh8EkMpO-BOuH4bMikoRDLakpW-VmFznZ130h0pg4vTAAfwsjwTvbjqHgFlzExIBUHDqgaeYpD5aWuC1jjiXxEy182es4Wv0VMpe5btqKR8f0VjaB-rl2G6tC0A8q5fHAfkY5fNxpYViSFAv6jJO-8F8w/https%3A%2F%2Fgithub.com%2FSPINEProject%2FLoris-MRI%2Fblob%2F19f469cce904ebe93ba5f641533e4c0ef39fadab%2FuploadNeuroDB%2Fminc_insertion.pl%23L454" target="_blank">
line 454</a>). I would be curious to see what the $center_name and $centerID values returned are.</div>
</div>
</div>
</blockquote>
<div><span style="white-space:pre-wrap"></span>These are the returned values. Maybe we need to look deeper into this.</div>
<div>
<div><span style="white-space:pre-wrap"></span>===</div>
<div><span style="white-space:pre-wrap"></span>determinePSC->Center name: UNKN</div>
<div><span style="white-space:pre-wrap"></span>determinePSC->Center ID: 0</div>
<div><span style="white-space:pre-wrap"></span>===</div>
</div>
<br>
<blockquote type="cite">
<div>
<div dir="ltr">
<div><br>
</div>
<div>Could you also copy the code you have in your prod file for the function getSubjectIDs? </div>
</div>
</div>
</blockquote>
<div><br>
</div>
You mean this file “mri/dicom-archive/.loris_mri/prod”, right? Find the function enclosed.</div>
<div><br>
<blockquote type="cite">
<div>
<div dir="ltr">
<div><br>
</div>
<div>Finally, could you check that the candidate BGI102001_207019 does have a RegistrationCenterID set and if there is already a screening session created in the session table, that the CenterID of that session has properly been set?</div>
<div><br>
</div>
</div>
</div>
</blockquote>
<div><br>
</div>
<div>
<div>The candidate has a RegistrationCenterID (843):</div>
<div><span style="white-space:pre-wrap"></span>===</div>
<div><span style="white-space:pre-wrap"></span>select * from candidate where CandID=207019 \G;</div>
<div><span style="white-space:pre-wrap"></span>*************************** 1. row ***************************</div>
<div><span style="white-space:pre-wrap"></span> ID: 8974</div>
<div><span style="white-space:pre-wrap"></span> CandID: 207019</div>
<div><span style="white-space:pre-wrap"></span> PSCID: BGI102001</div>
<div><span style="white-space:pre-wrap"></span> ExternalID: NULL</div>
<div><span style="white-space:pre-wrap"></span> DoB: 1969-05-15</div>
<div><span style="white-space:pre-wrap"></span> EDC: NULL</div>
<div><span style="white-space:pre-wrap"></span> Sex: Female</div>
<div><span style="white-space:pre-wrap"></span><font color="#ffff02">RegistrationCenterID: 843</font></div>
<div><span style="white-space:pre-wrap"></span>RegistrationProjectID: 12</div>
<div><span style="white-space:pre-wrap"></span> Ethnicity: NULL</div>
<div><span style="white-space:pre-wrap"></span> Active: Y</div>
<div><span style="white-space:pre-wrap"></span> Date_active: 2021-05-27</div>
<div><span style="white-space:pre-wrap"></span> RegisteredBy: dataman</div>
<div><span style="white-space:pre-wrap"></span> UserID: dataman</div>
<div><span style="white-space:pre-wrap"></span> Date_registered: 2021-05-27</div>
<div><span style="white-space:pre-wrap"></span>flagged_caveatemptor: false</div>
<div><span style="white-space:pre-wrap"></span> flagged_reason: NULL</div>
<div><span style="white-space:pre-wrap"></span> flagged_other: NULL</div>
<div><span style="white-space:pre-wrap"></span>flagged_other_status: NULL</div>
<div><span style="white-space:pre-wrap"></span> Testdate: 2021-06-09 10:55:35</div>
<div><span style="white-space:pre-wrap"></span> Entity_type: Human</div>
<div><span style="white-space:pre-wrap"></span> ProbandSex: NULL</div>
<div><span style="white-space:pre-wrap"></span> ProbandDoB: NULL</div>
<div><span style="white-space:pre-wrap"></span> DoD: NULL</div>
<div><span style="white-space:pre-wrap"></span>1 row in set (0.00 sec)</div>
<div><span style="white-space:pre-wrap"></span>===</div>
</div>
<div><br>
</div>
<div>
<div>The session with the proper values already exists:</div>
<div><span style="white-space:pre-wrap"></span>===</div>
<div><span style="white-space:pre-wrap"></span>mysql> select * from session where CandID=207019 and Visit_label="screening" \G;</div>
<div><span style="white-space:pre-wrap"></span>*************************** 1. row ***************************</div>
<div><span style="white-space:pre-wrap"></span> ID: 127260</div>
<div><span style="white-space:pre-wrap"></span> <font color="#ffff02">
CandID: 207019</font></div>
<div><font color="#ffff02"><span style="white-space:pre-wrap"></span> CenterID: 843</font></div>
<div><span style="white-space:pre-wrap"></span> VisitNo: 1</div>
<div><span style="white-space:pre-wrap"></span> <font color="#ffff02">Visit_label: screening</font></div>
<div><span style="white-space:pre-wrap"></span> SubprojectID: 2</div>
<div><span style="white-space:pre-wrap"></span> Submitted: N</div>
<div><span style="white-space:pre-wrap"></span> Current_stage: Not Started</div>
<div><span style="white-space:pre-wrap"></span> Date_stage_change: NULL</div>
<div><span style="white-space:pre-wrap"></span> Screening: NULL</div>
<div><span style="white-space:pre-wrap"></span> Date_screening: NULL</div>
<div><span style="white-space:pre-wrap"></span> Visit: NULL</div>
<div><span style="white-space:pre-wrap"></span> Date_visit: NULL</div>
<div><span style="white-space:pre-wrap"></span> Approval: NULL</div>
<div><span style="white-space:pre-wrap"></span> Date_approval: NULL</div>
<div><span style="white-space:pre-wrap"></span> Active: Y</div>
<div><span style="white-space:pre-wrap"></span> Date_active: 2021-05-27</div>
<div><span style="white-space:pre-wrap"></span> RegisteredBy: dataman</div>
<div><span style="white-space:pre-wrap"></span> UserID: dataman</div>
<div><span style="white-space:pre-wrap"></span> Date_registered: 2021-05-27</div>
<div><span style="white-space:pre-wrap"></span> Testdate: 2021-06-10 18:35:41</div>
<div><span style="white-space:pre-wrap"></span> Hardcopy_request: -</div>
<div><span style="white-space:pre-wrap"></span> BVLQCStatus: NULL</div>
<div><span style="white-space:pre-wrap"></span> BVLQCType: NULL</div>
<div><span style="white-space:pre-wrap"></span> BVLQCExclusion: NULL</div>
<div><span style="white-space:pre-wrap"></span> QCd: NULL</div>
<div><span style="white-space:pre-wrap"></span> Scan_done: Y</div>
<div><span style="white-space:pre-wrap"></span> MRIQCStatus: </div>
<div><span style="white-space:pre-wrap"></span> MRIQCPending: N</div>
<div><span style="white-space:pre-wrap"></span>MRIQCFirstChangeTime: NULL</div>
<div><span style="white-space:pre-wrap"></span>MRIQCLastChangeTime: NULL</div>
<div><span style="white-space:pre-wrap"></span> MRICaveat: false</div>
<div><span style="white-space:pre-wrap"></span> ProjectID: 12</div>
<div><span style="white-space:pre-wrap"></span> languageID: 1</div>
<div><span style="white-space:pre-wrap"></span>1 row in set (0.00 sec)</div>
<div><span style="white-space:pre-wrap"></span>===</div>
</div>
<br>
<blockquote type="cite">
<div>
<div dir="ltr">
<div>Thank you!</div>
<div><br>
</div>
<div>Cécile</div>
</div>
<br>
<div>
<div dir="ltr">On Fri, Nov 26, 2021 at 2:34 PM Morales Pinzon, Alfredo <<a href="mailto:AMORALESPINZON@bwh.harvard.edu" target="_blank">AMORALESPINZON@bwh.harvard.edu</a>> wrote:<br>
</div>
<blockquote style="margin:0px 0px 0px 0.8ex; border-left:1px solid rgb(204,204,204); padding-left:1ex">
<div>Hi Cécile,
<div><br>
</div>
<div>Thank you for answer. </div>
<div><br>
</div>
<div>I included the following lines:</div>
<div><br>
</div>
<div>===</div>
<div>
<div style="margin:0px; font-stretch:normal; font-size:11px; line-height:normal; font-family:Menlo; color:rgb(170,171,37)">
<div style="margin:0px; font-stretch:normal; line-height:normal"><span style="font-variant-ligatures:no-common-ligatures"> . " NOW(), 'NeuroDB::MRI', 'Scanner' ) ";</span></div>
<div style="margin:0px; font-stretch:normal; line-height:normal; color:rgb(57,192,38)">
<span style="font-variant-ligatures:no-common-ligatures">+ print "\nCenter ID: " . $centerID . "\n\n";</span></div>
<div style="margin:0px; font-stretch:normal; line-height:normal; color:rgb(57,192,38)">
<span style="font-variant-ligatures:no-common-ligatures">+ print "\nQuery:" . $query . "\n\n";</span></div>
<div style="margin:0px; font-stretch:normal; line-height:normal"><span style="font-variant-ligatures:no-common-ligatures"> $dbh->do($query);</span></div>
<div style="margin:0px; font-stretch:normal; line-height:normal"><span style="font-variant-ligatures:no-common-ligatures"> } </span></div>
</div>
</div>
<div>===</div>
<div><br>
</div>
<div>And I got the following output:</div>
<div><br>
</div>
<div>===</div>
<div>
<div style="margin:0px; font-stretch:normal; font-size:11px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures">perl <a href="http://secure-web.cisco.com/1AcpksGPD0fcXlGw-72nF5bIorKsi2a9cDq7Wv-13LsJ3nMgtSqaBUK52_TDPgdnaR31cAXitmHZBROzlbUzVSLt7NNfNUEoLAzoVzQxbeMcKgKRPZKB5buA54ELuCzLsaxCmaICUrqPr9kBNY64H9sQ07LVj_j4VK-Nhmk1d8H6bVa4T3fXZ2LnHlBqWGLRwsp6j2TPPyxS2PtujnfjzbAbVIaLJuxAOYmjNJPE15dPo8Mfm_XBeAuFgKDQBx78EgSHLn5oS5e9hHqPLghSbr_gClpiauYIGe2TzPPrTwRO-bQh8hPTQ2rcHfkITL3as/http%3A%2F%2Fminc_insertion.pl" target="_blank">
minc_insertion.pl</a> -profile prod -force -mincPath /data/BGI102001_207019_screening.mnc -verbose -acquisition_protocol t1c -create_minc_pics</span></div>
<div style="margin:0px; font-stretch:normal; font-size:11px; line-height:normal; font-family:Menlo; min-height:13px">
<span style="font-variant-ligatures:no-common-ligatures"></span><br>
</div>
<div style="margin:0px; font-stretch:normal; font-size:11px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures">log dir is /data_/ipmsa/loris_data/IPMSA/data/logs and log file is /data_/ipmsa/loris_data/IPMSA/data/logs/TarLoad-14-31-d7FH_S.log </span></div>
<div style="margin:0px; font-stretch:normal; font-size:11px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures"> SELECT ArchiveLocation FROM tarchive WHERE TarchiveID = ( SELECT TarchiveID FROM tarchive_series WHERE SeriesUID=?
AND EchoTime=? ) </span></div>
<div style="margin:0px; font-stretch:normal; font-size:11px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures">Center ID: 0</span></div>
<div style="margin:0px; font-stretch:normal; font-size:11px; line-height:normal; font-family:Menlo; min-height:13px">
<span style="font-variant-ligatures:no-common-ligatures"></span><br>
</div>
<div style="margin:0px; font-stretch:normal; font-size:11px; line-height:normal; font-family:Menlo; min-height:13px">
<span style="font-variant-ligatures:no-common-ligatures"></span><br>
</div>
<div style="margin:0px; font-stretch:normal; font-size:11px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures">Query:INSERT INTO candidate (CandID, PSCID, RegistrationCenterID, Date_active, Date_registered, UserID, Entity_type ) VALUES (442627, 'scanner', 0, NOW(), NOW(),
'NeuroDB::MRI', 'Scanner' ) </span></div>
<div style="margin:0px; font-stretch:normal; font-size:11px; line-height:normal; font-family:Menlo; min-height:13px">
<span style="font-variant-ligatures:no-common-ligatures"></span><br>
</div>
<div style="margin:0px; font-stretch:normal; font-size:11px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures">DBD::mysql::db do failed: Cannot add or update a child row: a foreign key constraint fails (`IPMSA_LORIS`.`candidate`, CONSTRAINT `FK_candidate_1` FOREIGN KEY (`RegistrationCenterID`) REFERENCES `psc`
(`CenterID`)) at /data_/ipmsa/loris_data/IPMSA/bin/mri/uploadNeuroDB/NeuroDB/MRI.pm line 1020.</span></div>
<div style="margin:0px; font-stretch:normal; font-size:11px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures">ERROR: Failed to insert record in table mri_scanner:</span></div>
<div style="margin:0px; font-stretch:normal; font-size:11px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures">The following database commands failed:</span></div>
<div style="margin:0px; font-stretch:normal; font-size:11px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures"> PREPARE s FROM 'INSERT INTO mri_scanner (CandID,Model,Manufacturer,Serial_number,Software) VALUES (?,?,?,?,?)';</span></div>
<div style="margin:0px; font-stretch:normal; font-size:11px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures"> SET @x1='442627',@x2='Sonata',@x3='Siemens',@x4='syngo_MR_2004A_4VA25A';</span></div>
<div style="margin:0px; font-stretch:normal; font-size:11px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures"> EXECUTE s USING @x1,@x2,@x3,@x4,@x5;</span></div>
<div style="margin:0px; font-stretch:normal; font-size:11px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures">Error obtained:Cannot add or update a child row: a foreign key constraint fails (`IPMSA_LORIS`.`mri_scanner`, CONSTRAINT `FK_mri_scanner_1` FOREIGN KEY (`CandID`) REFERENCES `candidate` (`CandID`)) (error
code 1452)</span></div>
</div>
<div>===</div>
<div><br>
</div>
<div>I think it’s important to mention that this candidate was created by the bids importing script. Maybe there is center associated with the candidates when using the bids script?</div>
<div><br>
</div>
<div>Let me know your thoughts.</div>
<div><br>
</div>
<div>Best,</div>
<div>Alfredo.<br>
<div><br>
<blockquote type="cite">
<div>On Nov 26, 2021, at 11:13 AM, Cecile Madjar <<a href="mailto:cecile.madjar@mcin.ca" target="_blank">cecile.madjar@mcin.ca</a>> wrote:</div>
<br>
<div>
<p><span style="padding:3px 10px; border-radius:5px; color:rgb(255,255,255); font-weight:bold; display:inline-block; background-color:rgb(255,0,0)"> External Email - Use Caution </span></p>
<div><br>
</div>
<div dir="ltr">Thank you Alfredo.
<div><br>
</div>
<div>I wonder whether the variable $centerID is null when provided to the query <a href="https://secure-web.cisco.com/1BZxp6fiw85BciAlo2QCPeT44gOAdEJUbAAAM3VJsTVYkl_27h-GCDhXtVO-8fh2ghdX3L0808bpAkrN-4-dTSIuf12yvdTBrdZ5Wl5YcKE3s4BTaFeJPBISOXE6-2TppWqpX8R4fldLsB6dpee4WAltjKy3u6ZJa01r-_Up1j5vB6cy_vbAyEgWl_Ft7ACUJ4VwQkwh01nnF8cpg5ePrLbF5bQw28VLFdg3Uo7dO81Ow5-zFCp5KKdHX0KX7vdIPmPuijtNDX9V5jT_YKMml5cX_tM2IVASxDa-wmo0JijRQ7k6oCTwK52FO0yRmVVeFj4108ZlyK2avqXijVKYreQ/https%3A%2F%2Fgithub.com%2FSPINEProject%2FLoris-MRI%2Fblob%2F19f469cce904ebe93ba5f641533e4c0ef39fadab%2FuploadNeuroDB%2FNeuroDB%2FMRI.pm%23L1012" target="_blank">
here</a> in your case.</div>
<div><br>
</div>
<div>Could you add in MRI.pm line 1018 the following print statements and let me know what you get? (Right before the $dbh->do($query);</div>
<div>print($centerID);</div>
<div>print($query);</div>
<div><br>
</div>
<div>Thank you!</div>
<div><br>
</div>
<div>Cécile</div>
</div>
<br>
<div>
<div dir="ltr">On Fri, Nov 26, 2021 at 10:55 AM Morales Pinzon, Alfredo <<a href="mailto:AMORALESPINZON@bwh.harvard.edu" target="_blank">AMORALESPINZON@bwh.harvard.edu</a>> wrote:<br>
</div>
<blockquote style="margin:0px 0px 0px 0.8ex; border-left:1px solid rgb(204,204,204); padding-left:1ex">
<div>Hi Cécile,
<div><br>
</div>
<div>This is the branch that we are using in the IPMSA project:</div>
<div><br>
</div>
<div><a href="https://secure-web.cisco.com/1_p5UjMqREHagXmmz7NxbZe91yrcn34HNneKcFN4qKhR9mT7798DmL7TgbLwjpDr1U0bQaX2Rdqcdu3-l5R95gEJ5AzIbYu4-psDEz9Gw3fmrcgxEel3V6rugNzEisR_jZbIG2f2KPrVumnb1MY-TJCYuPQqzVuM_3KHLYTzVKha7RbWAHq6GLefQmer8auU6BALsWue7RBcrrbG9kbGC-S-e1DZ-WP4gVNTDegrcGaghwyxclA9m6SZqs-OljIR6E7IViTaySgZuDnOp5meeyJlKdlksyj5cGVErq4YprL6I9uHWuLjB-06KBUFTBK6C1E38yyToTkJVVH-8LKRPKg/https%3A%2F%2Fgithub.com%2FSPINEProject%2FLoris-MRI%2Ftree%2Fv23.0.3_IPMSA" target="_blank">https://github.com/SPINEProject/Loris-MRI/tree/v23.0.3_IPMSA</a></div>
<div><br>
</div>
<div>Best,</div>
<div>Alfredo.<br>
<div><br>
<blockquote type="cite">
<div>On Nov 26, 2021, at 9:55 AM, Cecile Madjar <<a href="mailto:cecile.madjar@mcin.ca" target="_blank">cecile.madjar@mcin.ca</a>> wrote:</div>
<br>
<div>
<p><span style="padding:3px 10px; border-radius:5px; color:rgb(255,255,255); font-weight:bold; display:inline-block; background-color:rgb(255,0,0)"> External Email - Use Caution </span></p>
<div><br>
</div>
<div dir="ltr">Hi Alfredo,
<div><br>
</div>
<div>Could you point me to the version of the code you are using on GitHub so I can take a look at the correct MRI.pm file.</div>
<div><br>
</div>
<div>Thank you!</div>
<div><br>
</div>
<div>Cécile</div>
</div>
<br>
<div>
<div dir="ltr">On Thu, Nov 25, 2021 at 8:09 PM Morales Pinzon, Alfredo <<a href="mailto:AMORALESPINZON@bwh.harvard.edu" target="_blank">AMORALESPINZON@bwh.harvard.edu</a>> wrote:<br>
</div>
<blockquote style="margin:0px 0px 0px 0.8ex; border-left:1px solid rgb(204,204,204); padding-left:1ex">
<div>Hi Cécile,
<div><br>
</div>
<div>I’m getting the following error when inserting a minc file using the <a href="http://secure-web.cisco.com/1TzLj0luctz8Wb38Vv2psbWhbcU-f__EKvLSSaDYgEXmz5b0aqjDuEoOYgCDeNvO_wd_jY7vbVfBPyzukTp8u3bszcvl9RlzkffyCB96NEJ6ldbRDtpB5Dm1t3H6zAKfXwb47TCFKN4jo2cTx22wsEoMCjd40dMRoMr5y7-MMPE_rF9MBpp5uEB4y849W6nkPHoaERmNpP67XVRUarntyB3RrW-aH-TPtdYKd6qDPGkllZKISL3hlhs7AG4CCOQdZEVjiW6N9fr5aaSxBevb9TptNEJgPfB3dj-0XRNXWAt9bp6fvmGUwjIXEdKZVASmz/http%3A%2F%2Fminc_insertion.pl" target="_blank">
minc_insertion.pl</a> script:</div>
<div><br>
</div>
<div>===</div>
<div>
<div style="margin:0px; font-stretch:normal; font-size:14px; line-height:normal; font-family:Menlo">
<div style="margin:0px; font-stretch:normal; line-height:normal"><span style="font-variant-ligatures:no-common-ligatures">$ perl
<a href="http://secure-web.cisco.com/1TzLj0luctz8Wb38Vv2psbWhbcU-f__EKvLSSaDYgEXmz5b0aqjDuEoOYgCDeNvO_wd_jY7vbVfBPyzukTp8u3bszcvl9RlzkffyCB96NEJ6ldbRDtpB5Dm1t3H6zAKfXwb47TCFKN4jo2cTx22wsEoMCjd40dMRoMr5y7-MMPE_rF9MBpp5uEB4y849W6nkPHoaERmNpP67XVRUarntyB3RrW-aH-TPtdYKd6qDPGkllZKISL3hlhs7AG4CCOQdZEVjiW6N9fr5aaSxBevb9TptNEJgPfB3dj-0XRNXWAt9bp6fvmGUwjIXEdKZVASmz/http%3A%2F%2Fminc_insertion.pl" target="_blank">
minc_insertion.pl</a> -profile prod -force -mincPath /data/BGI102001_207019_screening.mnc -verbose -acquisition_protocol t1c -create_minc_pics</span></div>
</div>
<div style="margin:0px; font-stretch:normal; font-size:14px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures"><br>
</span></div>
<div style="margin:0px; font-stretch:normal; font-size:14px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures">DBD::mysql::db do failed: Cannot add or update a child row: a foreign key constraint fails (`IPMSA_LORIS`.`candidate`, CONSTRAINT `FK_candidate_1` FOREIGN KEY (`RegistrationCenterID`) REFERENCES `psc`
(`CenterID`)) at /data_/ipmsa/loris_data/IPMSA/bin/mri/uploadNeuroDB/NeuroDB/MRI.pm line 1018.</span></div>
<div style="margin:0px; font-stretch:normal; font-size:14px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures"><br>
</span></div>
<div style="margin:0px; font-stretch:normal; font-size:14px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures">ERROR: Failed to insert record in table mri_scanner:</span></div>
<div style="margin:0px; font-stretch:normal; font-size:14px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures"><br>
</span></div>
<div style="margin:0px; font-stretch:normal; font-size:14px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures">The following database commands failed:</span></div>
<div style="margin:0px; font-stretch:normal; font-size:14px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures"><span style="white-space:pre-wrap"></span>PREPARE s FROM 'INSERT INTO mri_scanner (Serial_number,Software,Manufacturer,Model,CandID) VALUES (?,?,?,?,?)';</span></div>
<div style="margin:0px; font-stretch:normal; font-size:14px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures"><span style="white-space:pre-wrap"></span>SET @x1='syngo_MR_2004A_4VA25A',@x2='Siemens',@x3='Sonata',@x4='247660';</span></div>
<div style="margin:0px; font-stretch:normal; font-size:14px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures"><span style="white-space:pre-wrap"></span>EXECUTE s USING @x1,@x2,@x3,@x4,@x5;</span></div>
<div style="margin:0px; font-stretch:normal; font-size:14px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures"><br>
</span></div>
<div style="margin:0px; font-stretch:normal; font-size:14px; line-height:normal; font-family:Menlo">
<span style="font-variant-ligatures:no-common-ligatures">Error obtained:Cannot add or update a child row: a foreign key constraint fails (`IPMSA_LORIS`.`mri_scanner`, CONSTRAINT `FK_mri_scanner_1` FOREIGN KEY (`CandID`) REFERENCES `candidate` (`CandID`)) (error
code 1452)</span></div>
</div>
<div>===</div>
<div><br>
</div>
<div>Could you help me figuring out what is happening? Is there something I should add to the minc headers?</div>
<div><br>
</div>
<div>Best,</div>
<div>Alfredo.<br>
<div><br>
</div>
</div>
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<p class="x_MsoNormal">Please note that this e-mail is not secure (encrypted). If you do not wish to continue communication over unencrypted e-mail, please notify the sender of this message immediately. Continuing to send or respond to e-mail after receiving
this message means you understand and accept this risk and wish to continue to communicate over unencrypted e-mail.
</p>
</div>
</blockquote>
</div>
</div>
</blockquote>
</div>
<br>
</div>
<div>The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Mass General Brigham Compliance HelpLine at
<a href="http://secure-web.cisco.com/14gGcX-ZD6Amc10oWq9YHUYDZwfI3Ra0YaIetGnqyBxDXjW2fkG07-SpnWf6ZWiMMuWxnSoLULOR9NMLOcJiMgBuZCcIt0RYXiMw3EibvjtSF-QMJ3sGSOAMIROOiVMwlt5nrV2O7wLJlh3xOKBlVMU7fcJsx9UxZkRIrvXGY3If6E2iTE4UQ5ZI1j6xGWgdYq5ff8qBRME2FK0lFmNWaFYVTYkmphxy8dXKWJMPtlpfY2km6XVTFG28sO33tQBCVVJ-jGy9f7bMO8sAj6sP8h9mT1Mrv2oq5fwVO8Zx6Ec1j9vTarLT6L_MOVQWPA1YvjGshE6gRajrWQAAwcQfw-w/http%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline" target="_blank">
http://www.massgeneralbrigham.org/complianceline</a> . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.</div>
<br>
<p class="x_MsoNormal">Please note that this e-mail is not secure (encrypted). If you do not wish to continue communication over unencrypted e-mail, please notify the sender of this message immediately. Continuing to send or respond to e-mail after receiving
this message means you understand and accept this risk and wish to continue to communicate over unencrypted e-mail.
</p>
</div>
</blockquote>
</div>
</div>
<div>The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Mass General Brigham Compliance HelpLine at http://www.massgeneralbrigham.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.</div><br>
<p class="MsoNormal">Please note that this e-mail is not secure
(encrypted). If you do not wish to continue communication over
unencrypted e-mail, please notify the sender of this message immediately. Continuing to send or respond to e-mail after receiving this message means you
understand and accept this risk and wish to continue to communicate over
unencrypted e-mail. </p></body>
</html>