<html><head><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;">Hi Caitlin,<div><br></div><div>I believe the issue is actually at the Ensembl database end, as you’re using what we would call aliases to the registry to fetch your species of interest. If you run the ping script as such you’ll get hits for your two species:</div><div><br></div><div><div>% ./misc-scripts/ping_ensembl.pl --species "anolis_carolinensis"</div><div>Installation is good. Connection to Ensembl works and you can query the anolis_carolinensis core database</div><div>% ./misc-scripts/ping_ensembl.pl --species "scophthalmus_maximus"</div><div>Installation is good. Connection to Ensembl works and you can query the scophthalmus_maximus core database</div></div><div><br></div><div>Ovis aries does work because that database has the aliases “Ovis aries" and this is linked to the internal name “ovis_aries”. We will flag internally the fact that aliases are missing from some databases.</div><div><br></div><div>The two ways to potentially mitigate this would be</div><div><br></div><div>1. GeneMember has a link to the GenomeDB object so you can access the db_adaptor() method. This is the same logic GeneMember::get_Gene() uses. That method fetches the gene linked to a GeneMember, which might be a better way to proceed than using an ID lookup</div><div><br></div><div>2. You can edit the species name by lowercasing the name & replacing spaces with underscores which should get you somewhere</div><div><br></div><div>HTH</div><div><br></div><div>Andy</div><div><br></div><div><div>
<meta charset="UTF-8"><div dir="auto" style="caret-color: rgb(0, 0, 0); color: rgb(0, 0, 0); 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; overflow-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;"><div dir="auto" style="text-align: start; text-indent: 0px; overflow-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;"><div dir="auto" style="text-align: start; text-indent: 0px; overflow-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;"><div dir="auto" style="text-align: start; text-indent: 0px; overflow-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;"><div dir="auto" style="text-align: start; text-indent: 0px; overflow-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;"><div dir="auto" style="text-align: start; text-indent: 0px; overflow-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;"><div dir="auto" style="text-align: start; text-indent: 0px; overflow-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;"><div dir="auto" style="text-align: start; text-indent: 0px; overflow-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;"><div dir="auto" style="text-align: start; text-indent: 0px; overflow-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;"><div dir="auto" style="text-align: start; text-indent: 0px; overflow-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;"><div dir="auto" style="text-align: start; text-indent: 0px; overflow-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;"><div style="caret-color: rgb(0, 0, 0); color: rgb(0, 0, 0); letter-spacing: normal; text-transform: none; white-space: normal; word-spacing: 0px; text-decoration: none; -webkit-text-stroke-width: 0px;">------------<br></div><div>I sometimes send emails out of hours; I do not expect a response outside of your working hours.</div><div style="caret-color: rgb(0, 0, 0); color: rgb(0, 0, 0); letter-spacing: normal; text-transform: none; white-space: normal; word-spacing: 0px; text-decoration: none; -webkit-text-stroke-width: 0px;"><br></div><div style="caret-color: rgb(0, 0, 0); color: rgb(0, 0, 0); letter-spacing: normal; text-transform: none; white-space: normal; word-spacing: 0px; text-decoration: none; -webkit-text-stroke-width: 0px;">Andrew Yates - Genomics Technology Infrastructure Team Leader, Joint-PI Ensembl Project</div><div style="caret-color: rgb(0, 0, 0); color: rgb(0, 0, 0); letter-spacing: normal; text-transform: none; white-space: normal; word-spacing: 0px; text-decoration: none; -webkit-text-stroke-width: 0px;">The European Bioinformatics Institute (EMBL-EBI)<br>Wellcome Genome Campus<br>Hinxton, Cambridge<br>CB10 1SD, United Kingdom<br>Tel: +44-(0)1223-492538<br>Fax: +44-(0)1223-494468<br>Skype: andy.yates.ebi<br>https://www.ebi.ac.uk/<br>https://www.ensembl.org/</div></div></div></div></div></div></div></div></div></div></div></div>
</div>
<div><br><blockquote type="cite"><div>On 6 Oct 2023, at 15:32, Caitlin Jagla (Affiliate) <cjagla@associates.sigsci.com> wrote:</div><br class="Apple-interchange-newline"><div><meta charset="UTF-8"><div class="WordSection1" style="page: WordSection1; caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; 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: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Hello all,<span class="Apple-converted-space"> </span><o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">I have installed the perl API and am using it to query Ensembl for orthologs across all species in the main/vertebrates database. I can get a list of Ensembl ids for all the orthologs using the HomologyAdaptor and GeneMemberAdaptor. However, when I go to use these Ensembl ids to retrieve the gene sequence using SliceAdaptor->fetch_by_gene_stable_id($gene), many species (116 out of 166) give an error message as seen below. I can retrieve gene sequences for the remainder of the species, and I can't see any pattern or systematic differences in the ones that work vs. those that don't.<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">```<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">-------------------- WARNING ----------------------<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">MSG: Scophthalmus maximus is not a valid species name (check DB and API version)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">FILE: Bio/EnsEMBL/Registry.pm LINE: 1334<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">CALLED BY: Bio/EnsEMBL/Registry.pm LINE: 1109<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Date (localtime) = Fri Oct 6 09:47:29 2023<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Ensembl API version = 110<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">---------------------------------------------------<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">```<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">I tested a selection of these species with the ping_ensembl.pl script and some of them ping while others don’t:<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">```<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">[cjagla@mapp02 ~/homologuer]$ perl /data/users/cjagla/src/ensembl/misc-scripts/ping_ensembl.pl -species "Ovis aries"<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Installation is good. Connection to Ensembl works and you can query the Ovis aries core database<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">[cjagla@mapp02 ~/homologuer]$ perl /data/users/cjagla/src/ensembl/misc-scripts/ping_ensembl.pl -species "Ovis aries" -ue<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Installation is good. Connection to Ensembl works and you can query the Ovis aries core database<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">[cjagla@mapp02 ~/homologuer]$ perl /data/users/cjagla/src/ensembl/misc-scripts/ping_ensembl.pl -species "Anolis carolinensis" -ue<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">-------------------- WARNING ----------------------<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">MSG: Anolis carolinensis is not a valid species name (check DB and API version)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">FILE: Bio/EnsEMBL/Registry.pm LINE: 1334<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">CALLED BY: Bio/EnsEMBL/Registry.pm LINE: 636<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Date (localtime) = Fri Oct 6 09:30:41 2023<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Ensembl API version = 110<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">---------------------------------------------------<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">ERROR: Error detected when connecting to Ensembl!<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Species was not found. You may have accidentally download the HEAD API version (found API release 110 & public FTP release is 110). Please consult<span class="Apple-converted-space"> </span><a href="http://www.ensembl.org/info/docs/api/api_installation.html" style="color: rgb(5, 99, 193); text-decoration: underline;">http://www.ensembl.org/info/docs/api/api_installation.html</a><o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">================================================================================<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">If the problem persists please send the following error message to<span class="Apple-converted-space"> </span><a href="mailto:helpdesk@ensembl.org" style="color: rgb(5, 99, 193); text-decoration: underline;">helpdesk@ensembl.org</a><o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">-------------------- EXCEPTION --------------------<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">MSG: Can not find internal name for species 'Anolis carolinensis'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">STACK Bio::EnsEMBL::Registry::get_DBAdaptor /data/users/cjagla/src/ensembl/modules/Bio/EnsEMBL/Registry.pm:640<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">STACK (eval) /data/users/cjagla/src/ensembl/misc-scripts/<a href="http://ping_ensembl.pl:131/" style="color: rgb(5, 99, 193); text-decoration: underline;">ping_ensembl.pl:131</a><o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">STACK toplevel /data/users/cjagla/src/ensembl/misc-scripts/<a href="http://ping_ensembl.pl:114/" style="color: rgb(5, 99, 193); text-decoration: underline;">ping_ensembl.pl:114</a><o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Date (localtime) = Fri Oct 6 09:30:41 2023<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Ensembl API version = 110<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">---------------------------------------------------<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">================================================================================<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">[cjagla@mapp02 ~/homologuer]$ perl /data/users/cjagla/src/ensembl/misc-scripts/ping_ensembl.pl -species "Scophthalmus maximus"<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">-------------------- WARNING ----------------------<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">MSG: Scophthalmus maximus is not a valid species name (check DB and API version)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">FILE: Bio/EnsEMBL/Registry.pm LINE: 1334<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">CALLED BY: Bio/EnsEMBL/Registry.pm LINE: 636<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Date (localtime) = Fri Oct 6 10:07:10 2023<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Ensembl API version = 110<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">---------------------------------------------------<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">ERROR: Error detected when connecting to Ensembl!<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Species was not found. You may have accidentally download the HEAD API version (found API release 110 & public FTP release is 110). Please consult<span class="Apple-converted-space"> </span><a href="http://www.ensembl.org/info/docs/api/api_installation.html" style="color: rgb(5, 99, 193); text-decoration: underline;">http://www.ensembl.org/info/docs/api/api_installation.html</a><o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">================================================================================<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">If the problem persists please send the following error message to<span class="Apple-converted-space"> </span><a href="mailto:helpdesk@ensembl.org" style="color: rgb(5, 99, 193); text-decoration: underline;">helpdesk@ensembl.org</a><o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">-------------------- EXCEPTION --------------------<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">MSG: Can not find internal name for species 'Scophthalmus maximus'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">STACK Bio::EnsEMBL::Registry::get_DBAdaptor /data/users/cjagla/src/ensembl/modules/Bio/EnsEMBL/Registry.pm:640<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">STACK (eval) /data/users/cjagla/src/ensembl/misc-scripts/<a href="http://ping_ensembl.pl:131/" style="color: rgb(5, 99, 193); text-decoration: underline;">ping_ensembl.pl:131</a><o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">STACK toplevel /data/users/cjagla/src/ensembl/misc-scripts/<a href="http://ping_ensembl.pl:114/" style="color: rgb(5, 99, 193); text-decoration: underline;">ping_ensembl.pl:114</a><o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Date (localtime) = Fri Oct 6 10:07:10 2023<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Ensembl API version = 110<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">---------------------------------------------------<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">================================================================================<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">```<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">I also loaded the registry using the -verbose option and found that all the core databases are being loaded with version 110 of their databases, and I am using v110 of the API:<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">```<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">...<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Species 'anolis_carolinensis' loaded from database 'anolis_carolinensis_core_110_2'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Species 'ovis_aries' loaded from database 'ovis_aries_core_110_31'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Species 'scophthalmus_maximus' loaded from database 'scophthalmus_maximus_core_110_1'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">...<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">ensembl_compara_110 loaded<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">ensembl_ancestral_110 loaded<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">ensembl_ontology_110 loaded<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">ncbi_taxonomy_110 loaded<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">ensembl_metadata_110 loaded<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">No production database or adaptor found<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">ensembl_stable_ids_110 loaded<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">```<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">I have tried uninstalling and reinstalling the Ensembl API using the GitHub method, which did not resolve the issue.<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">The only thing of note that I can see from the -verbose output is the second-to-last line, "No production database or adaptor found" - I'm not sure what that's referring to, but it looks like the load_registry_from_db method is looking for something and not finding it, so it could be relevant?<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Does anyone have any suggestions to resolve this issue? It's a major roadblock and I can't move forward in my research until I fix it.<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Thank you,<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Caitlin Jagla<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Bioinformatics Data Scientist<span class="Apple-converted-space"> </span><o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Signature Science<span class="Apple-converted-space"> </span><o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><a href="mailto:cjagla@associates.signaturescience.com" style="color: rgb(5, 99, 193); text-decoration: underline;">cjagla@associates.signaturescience.com</a><o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Output of requested commands from 'debugging ensembl API' page:<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">perl -V<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">```<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Summary of my perl5 (revision 5 version 32 subversion 1) configuration:<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Platform:<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> osname=linux<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> osvers=4.18.0-425.3.1.el8.x86_64<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> archname=x86_64-linux-thread-multi<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> uname='linux 70a103858837433dbfc3ed5de4202b9b 4.18.0-425.3.1.el8.x86_64 #1 smp tue nov 8 14:08:25 est 2022 x86_64 x86_64 x86_64 gnulinux '<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> config_args='-des -Doptimize=none -Dccflags=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Dldflags=-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Dccdlflags=-Wl,--enable-new-dtags -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Dlddlflags=-shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Dshrpdir=/usr/lib64 -DDEBUGGING=-g -Dversion=5.32.1 -Dmyhostname=localhost -Dperladmin=root@localhost -Dcc=gcc -Dcf_by=Red Hat, Inc. -Dprefix=/usr -Dvendorprefix=/usr -Dsiteprefix=/usr/local -Dsitelib=/usr/local/share/perl5/5.32 -Dsitearch=/usr/local/lib64/perl5/5.32 -Dprivlib=/usr/share/perl5 -Dvendorlib=/usr/share/perl5/vendor_perl -Darchlib=/usr/lib64/perl5 -Dvendorarch=/usr/lib64/perl5/vendor_perl -Darchname=x86_64-linux-thread-multi -Dlibpth=/usr/local/lib64 /lib64 /usr/lib64 -Duseshrplib -Dusethreads -Duseithreads -Dusedtrace=/usr/bin/dtrace -Duselargefiles -Dd_semctl_semun -Di_db -Ui_ndbm -Di_gdbm -Di_shadow -Di_syslog -Dman3ext=3pm -Duseperlio -Dinstallusrbinperl=n -Ubincompat5005 -Uversiononly -Dpager=/usr/bin/less -isr -Dd_gethostent_r_proto -Ud_endhostent_r_proto -Ud_sethostent_r_proto -Ud_endprotoent_r_proto -Ud_setprotoent_r_proto -Ud_endservent_r_proto -Ud_setservent_r_proto -Dscriptdir=/usr/bin -Dusesitecustomize -Duse64bitint'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> hint=recommended<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> useposix=true<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> d_sigaction=define<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> useithreads=define<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> usemultiplicity=define<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> use64bitint=define<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> use64bitall=define<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> uselongdouble=undef<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> usemymalloc=n<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> default_inc_excludes_dot=define<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> bincompat5005=undef<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Compiler:<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> cc='gcc'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> ccflags ='-D_REENTRANT -D_GNU_SOURCE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fwrapv -fno-strict-aliasing -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> optimize=' -g'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> cppflags='-D_REENTRANT -D_GNU_SOURCE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v2 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fwrapv -fno-strict-aliasing -I/usr/local/include'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> ccversion=''<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> gccversion='11.3.1 20221121 (Red Hat 11.3.1-4)'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> gccosandvers=''<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> intsize=4<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> longsize=8<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> ptrsize=8<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> doublesize=8<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> byteorder=12345678<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> doublekind=3<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> d_longlong=define<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> longlongsize=8<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> d_longdbl=define<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> longdblsize=16<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> longdblkind=3<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> ivtype='long'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> ivsize=8<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> nvtype='double'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> nvsize=8<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Off_t='off_t'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> lseeksize=8<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> alignbytes=8<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> prototype=define<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Linker and Libraries:<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> ld='gcc'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> ldflags ='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -fstack-protector-strong -L/usr/local/lib'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> libpth=/usr/local/lib64 /lib64 /usr/lib64 /usr/local/lib /usr/lib /lib/../lib64 /usr/lib/../lib64 /lib<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> libs=-lpthread -lresolv -lgdbm -ldb -ldl -lm -lcrypt -lutil -lc -lgdbm_compat<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> perllibs=-lpthread -lresolv -ldl -lm -lcrypt -lutil -lc<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> libc=/lib/../lib64/libc.so.6<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> so=so<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> useshrplib=true<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> libperl=libperl.so<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> gnulibc_version='2.34'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Dynamic Linking:<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> dlsrc=dl_dlopen.xs<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> dlext=so<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> d_dlsymun=undef<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> ccdlflags='-Wl,--enable-new-dtags -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 '<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> cccdlflags='-fPIC'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> lddlflags='-lpthread -shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -L/usr/local/lib -fstack-protector-strong'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">Characteristics of this binary (from libperl):<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Compile-time options:<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> HAS_TIMES<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> MULTIPLICITY<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> PERLIO_LAYERS<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> PERL_COPY_ON_WRITE<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> PERL_DONT_CREATE_GVSV<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> PERL_IMPLICIT_CONTEXT<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> PERL_MALLOC_WRAP<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> PERL_OP_PARENT<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> PERL_PRESERVE_IVUV<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> USE_64_BIT_ALL<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> USE_64_BIT_INT<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> USE_ITHREADS<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> USE_LARGE_FILES<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> USE_LOCALE<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> USE_LOCALE_COLLATE<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> USE_LOCALE_CTYPE<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> USE_LOCALE_NUMERIC<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> USE_LOCALE_TIME<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> USE_PERLIO<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> USE_PERL_ATOF<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> USE_REENTRANT_API<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> USE_SITECUSTOMIZE<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> USE_THREAD_SAFE_LOCALE<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Locally applied patches:<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch1: Removes date check, Fedora/RHEL specific<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch2: support for libdir64<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch3: use libresolv instead of libbind<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch4: USE_MM_LD_RUN_PATH<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch5: Provide MM::maybe_command independently (bug #1129443)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch6: Dont run one io test due to random builder failures<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch8: Define SONAME for libperl.so<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch9: Install libperl.so to -Dshrpdir value<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch10: Make *DBM_File desctructors thread-safe (RT#61912)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch11: Replace EU::MakeMaker dependency with EU::MM::Utils in IPC::Cmd (bug #1129443)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch12: Link XS modules to pthread library to fix linking with -z defs<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch13: Pass the correct CFLAGS to dtrace<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch14: Do not use C compiler reserved identifiers<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch15: Fix SvUV_nomg() macro definition<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch16: Fix SvTRUE() documentation<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch17: Fix ext/XS-APItest/t/utf8_warn_base.pl tests<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch18: Fix IO::Handle::error() to report write errors (GH#6799)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch19: Fix IO::Handle::error() to report write errors (GH#6799)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch21: Fix setting a non-blocking mode in IO::Socket::UNIX (GH#17787)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch22: Fix running actions after stepping in a debugger (GH#17901)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch23: Fix running actions after stepping in a debugger (GH#17901)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch24: Fix running actions after stepping in a debugger (GH#17901)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch25: Fix a buffer size for asctime_r() and ctime_r() functions<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch26: Prevent from an integer overflow in RenewDouble() macro<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch28: Fix a number of arguments passed to a BOOT XS subroutine (GH#17755)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch29: Fix an IO::Handle spurious error reported for regular file handles (GH#18019)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch30: Fix inheritance resolution of lexial objects in a debugger (GH#17661)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch35: Fix sorting with a block that calls return (GH#18081)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch38: Fix sv_collxfrm macro to respect locale<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch39: Fix an iterator signedness in handling an mro exception (GH#18155)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch40: Fix a code flow in Perl_sv_inc_nomg()<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch41: Fix an undefined behavior in Perl_custom_op_get_field()<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch42: Fix Config variable names in in t/op tests<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch43: Fix fetching a magic on the stacked file test operators<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch44: Fix a crash in optimizing split() (GH#18232)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch45: Fix a crash in optimizing split() (GH#18232)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch46: Fix a crash in optimizing split() (GH#18232)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch47: Fix a crash in optimizing split() (GH#18232)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch48: Make accessing environment by DynaLoader thread-safe<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch49: Use duplocale() if available<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch50: Fix fc() in Turkish locale<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch51: Fix croaking on "my $_" when "use utf8" is in effect (GH#18449)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch52: Fix PERL_UNUSED_ARG() definition in XSUB.h<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch53: Add missing entries to perldiag (GH#18276)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch54: Protect locale tests from LANGUAGE environment variable<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch55: Prevent the number of buckets in a hash from getting too large<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch56: Fix a memory leak when compiling a regular expression (GH#18604)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch57: Fix dumping a hash entry of PL_strtab type<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch57: Fix an arithmetic left shift of a minimal integer value (GH#18639)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch200: Link XS modules to libperl.so with EU::CBuilder on Linux<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch201: Link XS modules to libperl.so with EU::MM on Linux<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Fedora Patch202: Add definition of OPTIMIZE to .ph files (bug #2159759)<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Built under linux<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> Compiled at Jan 18 2023 00:00:00<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> %ENV:<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> PERL5LIB=":/data/users/cjagla/src/bioperl-1.6.924:/data/users/cjagla/src/ensembl/modules:/data/users/cjagla/src/ensembl-compara/modules:/data/users/cjagla/src/ensembl-variation/modules:/data/users/cjagla/src/ensembl-funcgen/modules:/data/users/cjagla/src/ensembl-metadata/modules:/data/users/cjagla/src/ensembl-taxonomy/modules"<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> @INC:<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> /data/users/cjagla/src/bioperl-1.6.924<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> /data/users/cjagla/src/ensembl/modules<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> /data/users/cjagla/src/ensembl-compara/modules<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> /data/users/cjagla/src/ensembl-variation/modules<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> /data/users/cjagla/src/ensembl-funcgen/modules<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> /data/users/cjagla/src/ensembl-metadata/modules<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> /data/users/cjagla/src/ensembl-taxonomy/modules<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> /usr/local/lib64/perl5/5.32<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> /usr/local/share/perl5/5.32<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> /usr/lib64/perl5/vendor_perl<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> /usr/share/perl5/vendor_perl<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> /usr/lib64/perl5<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"> /usr/share/perl5<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">```<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">perl -MDBI -e 'warn $DBI::VERSION'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">```<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">1.643 at -e line 1.<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">```<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;"><o:p> </o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">perl -MDBD::mysql -e 'warn $DBD::mysql::VERSION'<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">```<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">4.050 at -e line 1.<o:p></o:p></div><div style="margin: 0in; font-size: 11pt; font-family: Calibri, sans-serif;">```<o:p></o:p></div></div><span style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; 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; float: none; display: inline !important;">_______________________________________________</span><br style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; 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;"><span style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; 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; float: none; display: inline !important;">Dev mailing list </span><a href="mailto:Dev@ensembl.org" style="color: rgb(5, 99, 193); text-decoration: underline; font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;">Dev@ensembl.org</a><br style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; 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;"><span style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; 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; float: none; display: inline !important;">Posting guidelines and subscribe/unsubscribe info:<span class="Apple-converted-space"> </span></span><a href="https://lists.ensembl.org/mailman/listinfo/dev_ensembl.org" style="color: rgb(5, 99, 193); text-decoration: underline; font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;">https://lists.ensembl.org/mailman/listinfo/dev_ensembl.org</a><br style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; 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;"><span style="caret-color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; 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; float: none; display: inline !important;">Ensembl Blog:<span class="Apple-converted-space"> </span></span><a href="http://www.ensembl.info/" style="color: rgb(5, 99, 193); text-decoration: underline; font-family: Helvetica; font-size: 12px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;">http://www.ensembl.info/</a></div></blockquote></div><br></div></body></html>