From debbugs-submit-bounces@debbugs.gnu.org Thu Oct 29 06:44:10 2020 Received: (at submit) by debbugs.gnu.org; 29 Oct 2020 10:44:11 +0000 Received: from localhost ([127.0.0.1]:51982 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1kY5Pe-000453-LZ for submit@debbugs.gnu.org; Thu, 29 Oct 2020 06:44:10 -0400 Received: from lists.gnu.org ([209.51.188.17]:55262) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1kY5Pc-00044v-Vt for submit@debbugs.gnu.org; Thu, 29 Oct 2020 06:44:10 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:48028) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1kY5Pc-0007lZ-Of for guix-patches@gnu.org; Thu, 29 Oct 2020 06:44:08 -0400 Received: from fencepost.gnu.org ([2001:470:142:3::e]:37687) by eggs.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1kY5Pc-0006hc-Fm for guix-patches@gnu.org; Thu, 29 Oct 2020 06:44:08 -0400 Received: from 2001-1c02-0b2a-aa00-93bf-7c8c-0fae-b738.cable.dynamic.v6.ziggo.nl ([2001:1c02:b2a:aa00:93bf:7c8c:fae:b738]:49396) by fencepost.gnu.org with esmtpsa (TLS1.2:RSA_AES_256_CBC_SHA1:256) (Exim 4.82) (envelope-from ) id 1kY5Pc-0008Fm-1S for guix-patches@gnu.org; Thu, 29 Oct 2020 06:44:08 -0400 Message-ID: <6ccd23fc29b49611b82d9cc26461dfc294796aa3.camel@gnu.org> Subject: [PATCH] gnu: Update htslib to 1.11. From: Roel Janssen To: guix-patches@gnu.org Date: Thu, 29 Oct 2020 11:44:00 +0100 Content-Type: multipart/mixed; boundary="=-UG+kHl/BvBS9UfA5d9D/" User-Agent: Evolution 3.38.1 (3.38.1-1.fc33) MIME-Version: 1.0 X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: submit X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -3.3 (---) --=-UG+kHl/BvBS9UfA5d9D/ Content-Type: text/plain; charset="UTF-8" Content-Transfer-Encoding: 7bit Dear Guix, I'd like to update htslib to 1.11. The patch is straightfoward. Kind regards, Roel Janssen --=-UG+kHl/BvBS9UfA5d9D/ Content-Disposition: attachment; filename="0001-gnu-Update-htslib-to-1.11.patch" Content-Transfer-Encoding: base64 Content-Type: text/x-patch; name="0001-gnu-Update-htslib-to-1.11.patch"; charset="UTF-8" RnJvbSA4ZWQzM2VlOWNlNTFlN2U2NGZhZjVmM2FhZDA2ODRlYjk2NWVkMTMxIE1vbiBTZXAgMTcg MDA6MDA6MDAgMjAwMQpGcm9tOiBSb2VsIEphbnNzZW4gPHJvZWxAZ251Lm9yZz4KRGF0ZTogVGh1 LCAyOSBPY3QgMjAyMCAxMTo0MToyNyArMDEwMApTdWJqZWN0OiBbUEFUQ0hdIGdudTogVXBkYXRl IGh0c2xpYiB0byAxLjExLgoKKiBnbnUvcGFja2FnZXMvYmlvaW5mb3JtYXRpY3Muc2NtIChodHNs aWIpOiBVcGRhdGUgdG8gMS4xMS4KLS0tCiBnbnUvcGFja2FnZXMvYmlvaW5mb3JtYXRpY3Muc2Nt IHwgNCArKy0tCiAxIGZpbGUgY2hhbmdlZCwgMiBpbnNlcnRpb25zKCspLCAyIGRlbGV0aW9ucygt KQoKZGlmZiAtLWdpdCBhL2dudS9wYWNrYWdlcy9iaW9pbmZvcm1hdGljcy5zY20gYi9nbnUvcGFj a2FnZXMvYmlvaW5mb3JtYXRpY3Muc2NtCmluZGV4IDQxZDkyNDAxYWQuLjA5MjE2ZjZhOGQgMTAw NjQ0Ci0tLSBhL2dudS9wYWNrYWdlcy9iaW9pbmZvcm1hdGljcy5zY20KKysrIGIvZ251L3BhY2th Z2VzL2Jpb2luZm9ybWF0aWNzLnNjbQpAQCAtNDIxNSw3ICs0MjE1LDcgQEAgcGVyZm9ybWFuY2Uu IikKIChkZWZpbmUtcHVibGljIGh0c2xpYgogICAocGFja2FnZQogICAgIChuYW1lICJodHNsaWIi KQotICAgICh2ZXJzaW9uICIxLjkiKQorICAgICh2ZXJzaW9uICIxLjExIikKICAgICAoc291cmNl IChvcmlnaW4KICAgICAgICAgICAgICAgKG1ldGhvZCB1cmwtZmV0Y2gpCiAgICAgICAgICAgICAg ICh1cmkgKHN0cmluZy1hcHBlbmQKQEAgLTQyMjMsNyArNDIyMyw3IEBAIHBlcmZvcm1hbmNlLiIp CiAgICAgICAgICAgICAgICAgICAgIHZlcnNpb24gIi9odHNsaWItIiB2ZXJzaW9uICIudGFyLmJ6 MiIpKQogICAgICAgICAgICAgICAoc2hhMjU2CiAgICAgICAgICAgICAgICAoYmFzZTMyCi0gICAg ICAgICAgICAgICAgIjE2bGp2NDNzYzNmeG12NjN3N2IyZmY4bTFzN2g4OXhoYXp3bWJtMWJpY3o4 YXhxOGZqejAiKSkpKQorICAgICAgICAgICAgICAgICIxbXJxNG1paHp4Mzd5cWhqM3NmejZkYTZt dzQ5bmlpYTgwOGJ6c3cyZ2trZ21hZHh2eW5nIikpKSkKICAgICAoYnVpbGQtc3lzdGVtIGdudS1i dWlsZC1zeXN0ZW0pCiAgICAgOzsgTGV0IGh0c2xpYiB0cmFuc2xhdGUgImdzOi8vIiBhbmQgInMz Oi8vIiB0byByZWd1bGFyIGh0dHBzIGxpbmtzIHdpdGgKICAgICA7OyAiLS1lbmFibGUtZ2NzIiBh bmQgIi0tZW5hYmxlLXMzIi4gRm9yIHRoZXNlIG9wdGlvbnMgdG8gd29yaywgd2UgYWxzbwotLSAK Mi4yNi4yCgo= --=-UG+kHl/BvBS9UfA5d9D/-- From debbugs-submit-bounces@debbugs.gnu.org Thu Oct 29 07:01:26 2020 Received: (at submit) by debbugs.gnu.org; 29 Oct 2020 11:01:26 +0000 Received: from localhost ([127.0.0.1]:51989 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1kY5gM-0004W8-6L for submit@debbugs.gnu.org; Thu, 29 Oct 2020 07:01:26 -0400 Received: from lists.gnu.org ([209.51.188.17]:59258) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1kY5gK-0004W0-QT for submit@debbugs.gnu.org; Thu, 29 Oct 2020 07:01:25 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:51898) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1kY5gK-00027I-G3 for guix-patches@gnu.org; Thu, 29 Oct 2020 07:01:24 -0400 Received: from fencepost.gnu.org ([2001:470:142:3::e]:37878) by eggs.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1kY5gK-0004pz-5L; Thu, 29 Oct 2020 07:01:24 -0400 Received: from 2001-1c02-0b2a-aa00-93bf-7c8c-0fae-b738.cable.dynamic.v6.ziggo.nl ([2001:1c02:b2a:aa00:93bf:7c8c:fae:b738]:49470) by fencepost.gnu.org with esmtpsa (TLS1.2:RSA_AES_256_CBC_SHA1:256) (Exim 4.82) (envelope-from ) id 1kY5g8-0000xs-N2; Thu, 29 Oct 2020 07:01:20 -0400 Message-ID: <08b421af5c82326cae13054e014e926b6b3c4ece.camel@gnu.org> Subject: Re: [PATCH] gnu: Update htslib to 1.11. From: Roel Janssen To: guix-patches@gnu.org Date: Thu, 29 Oct 2020 12:01:07 +0100 In-Reply-To: <6ccd23fc29b49611b82d9cc26461dfc294796aa3.camel@gnu.org> References: <6ccd23fc29b49611b82d9cc26461dfc294796aa3.camel@gnu.org> Content-Type: multipart/mixed; boundary="=-V179VO+EjJIX1PznthK+" User-Agent: Evolution 3.38.1 (3.38.1-1.fc33) MIME-Version: 1.0 X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: submit Cc: 44304@debbugs.gnu.org X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -3.3 (---) --=-V179VO+EjJIX1PznthK+ Content-Type: text/plain; charset="UTF-8" Content-Transfer-Encoding: 8bit On Thu, 2020-10-29 at 11:44 +0100, Roel Janssen wrote: > Dear Guix, > > I'd like to update htslib to 1.11.  The patch is straightfoward. > > Kind regards, > Roel Janssen In addition to htslib, it'd be good to keep samtools and bcftools in sync. So here are the patches for bcftools and samtools. 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Thu, 29 Oct 2020 05:53:53 -0700 (PDT) References: <6ccd23fc29b49611b82d9cc26461dfc294796aa3.camel@gnu.org> <08b421af5c82326cae13054e014e926b6b3c4ece.camel@gnu.org> User-agent: mu4e 1.4.13; emacs 27.1 From: Ricardo Wurmus To: Roel Janssen Subject: Re: [bug#44304] [PATCH] gnu: Update htslib to 1.11. In-reply-to: <08b421af5c82326cae13054e014e926b6b3c4ece.camel@gnu.org> X-URL: https://elephly.net X-PGP-Key: https://elephly.net/rekado.pubkey X-PGP-Fingerprint: BCA6 89B6 3655 3801 C3C6 2150 197A 5888 235F ACAC Date: Thu, 29 Oct 2020 13:55:42 +0100 Message-ID: <877dr9199t.fsf@elephly.net> MIME-Version: 1.0 Content-Type: text/plain X-ZohoMailClient: External Received-SPF: pass client-ip=136.143.188.51; envelope-from=rekado@elephly.net; helo=sender4-of-o51.zoho.com X-detected-operating-system: by eggs.gnu.org: First seen = 2020/10/29 08:53:56 X-ACL-Warn: Detected OS = Linux 3.11 and newer [fuzzy] X-Spam_score_int: -20 X-Spam_score: -2.1 X-Spam_bar: -- X-Spam_report: (-2.1 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, RCVD_IN_DNSWL_NONE=-0.0001, RCVD_IN_MSPIKE_H2=-0.001, SPF_HELO_NONE=0.001, SPF_PASS=-0.001 autolearn=ham autolearn_force=no X-Spam_action: no action X-Spam-Score: -1.3 (-) X-Debbugs-Envelope-To: submit Cc: 44304@debbugs.gnu.org, guix-patches@gnu.org X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -2.3 (--) Roel Janssen writes: > On Thu, 2020-10-29 at 11:44 +0100, Roel Janssen wrote: >> Dear Guix, >> >> I'd like to update htslib to 1.11. The patch is straightfoward. >> >> Kind regards, >> Roel Janssen > > In addition to htslib, it'd be good to keep samtools and bcftools in > sync. So here are the patches for bcftools and samtools. These patches look good to me! -- Ricardo From debbugs-submit-bounces@debbugs.gnu.org Thu Oct 29 11:56:35 2020 Received: (at submit) by debbugs.gnu.org; 29 Oct 2020 15:56:35 +0000 Received: from localhost ([127.0.0.1]:54744 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1kYAHz-0008PW-78 for submit@debbugs.gnu.org; Thu, 29 Oct 2020 11:56:35 -0400 Received: from lists.gnu.org ([209.51.188.17]:55032) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1kYAHy-0008PP-6x for submit@debbugs.gnu.org; Thu, 29 Oct 2020 11:56:34 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:45998) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1kYAHw-0001Wg-OJ for guix-patches@gnu.org; Thu, 29 Oct 2020 11:56:33 -0400 Received: from fencepost.gnu.org ([2001:470:142:3::e]:42217) by eggs.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1kYAHw-00016S-4I; Thu, 29 Oct 2020 11:56:32 -0400 Received: from 2001-1c02-0b2a-aa00-93bf-7c8c-0fae-b738.cable.dynamic.v6.ziggo.nl ([2001:1c02:b2a:aa00:93bf:7c8c:fae:b738]:52254) by fencepost.gnu.org with esmtpsa (TLS1.2:RSA_AES_256_CBC_SHA1:256) (Exim 4.82) (envelope-from ) id 1kYAHv-0008NV-IM; Thu, 29 Oct 2020 11:56:31 -0400 Message-ID: <350a7d938aaca3d7379b9ef746d3d92064553b5a.camel@gnu.org> Subject: Re: [bug#44304] [PATCH] gnu: Update htslib to 1.11. From: Roel Janssen To: Ricardo Wurmus Date: Thu, 29 Oct 2020 16:56:24 +0100 In-Reply-To: <877dr9199t.fsf@elephly.net> References: <6ccd23fc29b49611b82d9cc26461dfc294796aa3.camel@gnu.org> <08b421af5c82326cae13054e014e926b6b3c4ece.camel@gnu.org> <877dr9199t.fsf@elephly.net> Content-Type: text/plain; charset="UTF-8" User-Agent: Evolution 3.38.1 (3.38.1-1.fc33) MIME-Version: 1.0 Content-Transfer-Encoding: 8bit X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: submit Cc: 44304-done@debbugs.gnu.org, guix-patches@gnu.org X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -3.3 (---) On Thu, 2020-10-29 at 13:55 +0100, Ricardo Wurmus wrote: > > Roel Janssen writes: > > > On Thu, 2020-10-29 at 11:44 +0100, Roel Janssen wrote: > > > Dear Guix, > > > > > > I'd like to update htslib to 1.11.  The patch is straightfoward. > > > > > > Kind regards, > > > Roel Janssen > > > > In addition to htslib, it'd be good to keep samtools and bcftools > > in > > sync.  So here are the patches for bcftools and samtools. > > These patches look good to me! > Thank you for the quick review! I pushed them in bcbd536e3f22e7bcce6ef535171f4257c79d2f0c, 04a49b414303c329032f74de67541cc39d2271c6, and f40add4dbb45a5a87fd5213e23e7ab0cc77c008e. Kind regards, Roel Janssen From unknown Wed Jun 18 23:06:08 2025 Received: (at fakecontrol) by fakecontrolmessage; To: internal_control@debbugs.gnu.org From: Debbugs Internal Request Subject: Internal Control Message-Id: bug archived. Date: Fri, 27 Nov 2020 12:24:04 +0000 User-Agent: Fakemail v42.6.9 # This is a fake control message. # # The action: # bug archived. thanks # This fakemail brought to you by your local debbugs # administrator