From MAILER-DAEMON Wed Jun 17 10:44:59 2020 Received: from list by lists.gnu.org with archive (Exim 4.90_1) id 1jlZJD-0007oy-9d for mharc-bug-parallel@gnu.org; Wed, 17 Jun 2020 10:44:59 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:49134) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1jlY6P-0003cN-M4 for bug-parallel@gnu.org; Wed, 17 Jun 2020 09:27:41 -0400 Received: from mail-lj1-x234.google.com ([2a00:1450:4864:20::234]:43911) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1jlY6N-0003bi-JS for bug-parallel@gnu.org; Wed, 17 Jun 2020 09:27:41 -0400 Received: by mail-lj1-x234.google.com with SMTP id n24so2820397lji.10 for ; Wed, 17 Jun 2020 06:27:38 -0700 (PDT) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20161025; h=mime-version:from:date:message-id:subject:to; bh=cG4W7WnfvMvULIRBhuZGa5sQnG/0YrY9HVoKG4HfEoA=; b=Pg2yQar+fL3NpQCHt+eYYn39s8MXr6DDlPELbn3GDTs/K8Z+8AkuYIGMH26T3bHbVa y5n83C9ED1OCEhyqeJGqbBq3DqRsMZXylVXnGU4RUv450XFLTNI68lW1Jhu7iUrUybyM V/hBTRRn4GV4Vk1DjWMzv/cj9wuVkxLaG47G3AJWJJZphnoskw5UXKFkef0P4YPQFK3D rrFEOK/+F6VY3vWUBKigW2BG/vXLu+tDMXmzWOkKxuB8vPVL4yeaz5lk884nomD4OlDP U1GyK+hyoa6CLZfw3er9ldwsC9KkEWtaLLxEoFiBclSiKc4HP+QbtHySE/BqYzVz0lBx 9yhA== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20161025; h=x-gm-message-state:mime-version:from:date:message-id:subject:to; bh=cG4W7WnfvMvULIRBhuZGa5sQnG/0YrY9HVoKG4HfEoA=; b=RgzgS0vlYUK7LXe78vWVCW4JXpeToqBc7iO42Yw/qv+xZJI7z47qc7P1slU8jdcBqX IbcIJDTnorFhw0MqfK9aE4RLbBO5ujRdw/RlPEkv2Icj2PUfDSSz1VqOPE2ce9q/F6Gr RRjMRUbXl1yqkT4IdZPWYZdfoy+en4PqS14hIFyWSMGxwNrbuG9xnfyoGRD4PhBjki0r Z5b5aQ+SlSSxeeAGG4EAvStofnTrBPSkRlB9lDNaGeFX8XTqCfIP2iRdcHzo7e6vMRwL rTc7AenCxjMb4dGJThY37rvdMBPzmNBseGhWHsw19KdtuziJVgDl76wOK5+65GONkfgi Ik+A== X-Gm-Message-State: AOAM532kBvx3lwz09rNBXNRb4t72IAMcAf/RVRPdJkLF5mkQNSbxsrF9 HmBO7Px37DcHZcE9P4DIYaqa2MNAHT9+74fybYJg2atmDrA= X-Google-Smtp-Source: ABdhPJwbteq+4QOlrjWON6unw5oZJlBvXZyoJlA9Zf3El1LS8mdp5cscOvf2QEuu2oAU0LcIFlLZf1K38r94DR0tFZg= X-Received: by 2002:a2e:98cb:: with SMTP id s11mr3963168ljj.402.1592400457002; Wed, 17 Jun 2020 06:27:37 -0700 (PDT) MIME-Version: 1.0 From: Jorge Ovalles Date: Wed, 17 Jun 2020 09:25:56 -0400 Message-ID: Subject: full backup stops after parallel full filled root partition #147 To: bug-parallel@gnu.org Content-Type: multipart/alternative; boundary="00000000000094715205a8479fec" Received-SPF: pass client-ip=2a00:1450:4864:20::234; envelope-from=ovalles.jorge@gmail.com; helo=mail-lj1-x234.google.com X-detected-operating-system: by eggs.gnu.org: No matching host in p0f cache. That's all we know. X-Spam_score_int: -17 X-Spam_score: -1.8 X-Spam_bar: - X-Spam_report: (-1.8 / 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, FREEMAIL_FROM=0.001, HTML_MESSAGE=0.001, HTML_OBFUSCATE_05_10=0.26, RCVD_IN_DNSWL_NONE=-0.0001, SPF_HELO_NONE=0.001, SPF_PASS=-0.001, T_KAM_HTML_FONT_INVALID=0.01 autolearn=_AUTOLEARN X-Spam_action: no action X-Mailman-Approved-At: Wed, 17 Jun 2020 10:44:57 -0400 X-BeenThere: bug-parallel@gnu.org X-Mailman-Version: 2.1.23 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Wed, 17 Jun 2020 13:27:41 -0000 --00000000000094715205a8479fec Content-Type: text/plain; charset="UTF-8" https://github.com/Zmbackup/zmbackup/issues/147 ERROR: [zimbra@server ~]$ zmbackup -f WARN: admin@paisa.com.ve found inside blacklist - Nothing to do. WARN: spam.yokuso_3@paisa.com.ve found inside blacklist - Nothing to do. WARN: ham.f9lwfyhk@paisa.com.ve found inside blacklist - Nothing to do. WARN: virus-quarantine.b9f1afzu@paisa.com.ve found inside blacklist - Nothing to do. WARN: galsync.jq7qxi5lq@paisa.com.ve found inside blacklist - Nothing to do. WARN: galsync@paisa.com.ve found inside blacklist - Nothing to do. WARN: zmbackup@paisa.com.ve found inside blacklist - Nothing to do. Backup session full-20200616144815 started on Tue Jun 16 14:48:17 -04 2020 parallel: Error: Output is incomplete. parallel: Error: Cannot append to buffer file in /tmp. parallel: Error: Is the disk full? parallel: Error: Change $TMPDIR with --tmpdir or use --compress. cat: write error: No space left on device Backup session full-20200616144815 finished on Tue Jun 16 16:14:15 -04 2020 /usr/local/lib/zmbackup/bash/NotifyAction.sh: line 65: printf: write error: No space left on device /usr/local/lib/zmbackup/bash/NotifyAction.sh: line 66: printf: write error: No space left on device /usr/local/lib/zmbackup/bash/NotifyAction.sh: line 66: printf: write error: No space left on device /usr/local/lib/zmbackup/bash/NotifyAction.sh: line 67: printf: write error: No space left on device /usr/local/lib/zmbackup/bash/NotifyAction.sh: line 67: printf: write error: No space left on device /usr/local/lib/zmbackup/bash/NotifyAction.sh: line 68: printf: write error: No space left on device /usr/local/lib/zmbackup/bash/NotifyAction.sh: line 68: printf: write error: No space left on device /usr/local/lib/zmbackup/bash/NotifyAction.sh: line 69: printf: write error: No space left on device /usr/local/lib/zmbackup/bash/NotifyAction.sh: line 69: printf: write error: No space left on device /usr/local/lib/zmbackup/bash/NotifyAction.sh: line 70: printf: write error: No space left on device /usr/local/lib/zmbackup/bash/NotifyAction.sh: line 70: printf: write error: No space left on device /usr/local/lib/zmbackup/bash/NotifyAction.sh: line 71: printf: write error: No space left on device /usr/local/lib/zmbackup/bash/NotifyAction.sh: line 71: printf: write error: No space left on device /usr/local/lib/zmbackup/bash/NotifyAction.sh: line 72: printf: write error: No space left on device /usr/local/lib/zmbackup/bash/NotifyAction.sh: line 72: printf: write error: No space left on device /usr/local/lib/zmbackup/bash/NotifyAction.sh: line 73: printf: write error: No space left on device /usr/local/lib/zmbackup/bash/NotifyAction.sh: line 73: printf: write error: No space left on device /usr/local/lib/zmbackup/bash/NotifyAction.sh: line 74: printf: write error: No space left on device cat: write error: No space left on device [zimbra@ntplanta1 ~]$ df -lh Filesystem Size Used Avail Use% Mounted on /dev/md126p2 79G 75G 0 100% / tmpfs 5.8G 0 5.8G 0% /dev/shm /dev/md126p1 194M 75M 109M 41% /boot /dev/mapper/VolGroup00-LogVol00 787G 691G 56G 93% /opt ISSUE TYPE: - Bug Report ENVIRONMENT VERSION - Zmbackup Version: zmbackup version: 1.2.3 - Zimbra Version: Release 8.7.11_GA_1854.RHEL6_64_20170531151956 RHEL6_64 FOSS edition, Patch 8.7.11_P14. - Linux Distribution & Version: CentOS 6.10 SUMMARY: initial full backup stop because parallel fill up root partition with temps SUMMARY: full backup with tiny root partition a huge /opt --00000000000094715205a8479fec Content-Type: text/html; charset="UTF-8" Content-Transfer-Encoding: quoted-printable


https://github.com/Zmbackup/zmbackup/issue= s/147=C2=A0=C2=A0


ERROR:
[zimbra@server ~]$ zmbackup -f
WARN:=C2=A0admin@paisa.com.ve=C2=A0found inside blacklist - N= othing to do.
WARN:=C2=A0spam.yokuso_3@p= aisa.com.ve=C2=A0found inside blacklist - Nothing to do.
WARN:=C2=A0ham.f9lwfyhk@paisa.com.ve=C2=A0found ins= ide blacklist - Nothing to do.
WARN:=C2= =A0virus-quarantine.b9f1afzu@paisa.com.ve=C2=A0found inside= blacklist - Nothing to do.
WARN:=C2=A0<= a href=3D"mailto:galsync.jq7qxi5lq@paisa.com.ve" style=3D"box-sizing:border= -box;background-color:initial;color:rgb(3,102,214);text-decoration-line:non= e">galsync.jq7qxi5lq@paisa.com.ve=C2=A0found inside blacklist - Nothing= to do.
WARN:=C2=A0galsync@paisa.com.ve=C2= =A0found inside blacklist - Nothing to do.
WARN:=C2=A0zmbackup@paisa.com.ve=C2=A0found inside blacklist - Nothing to= do.
Backup session full-20200616144815 = started on Tue Jun 16 14:48:17 -04 2020
= parallel: Error: Output is incomplete.
p= arallel: Error: Cannot append to buffer file in /tmp.
parallel: Error: Is the disk full?
parallel: Error: Change $TMPDIR with --tmpdir or use --compress.cat: write error: No space left on device=
Backup session full-20200616144815 fini= shed on Tue Jun 16 16:14:15 -04 2020
/us= r/local/lib/zmbackup/bash/NotifyAction.sh: line 65: printf: write error: No= space left on device
/usr/local/lib/zmb= ackup/bash/NotifyAction.sh: line 66: printf: write error: No space left on = device
/usr/local/lib/zmbackup/bash/Noti= fyAction.sh: line 66: printf: write error: No space left on device
/usr/local/lib/zmbackup/bash/NotifyAction.sh: li= ne 67: printf: write error: No space left on device
/usr/local/lib/zmbackup/bash/NotifyAction.sh: line 67: printf: = write error: No space left on device
/us= r/local/lib/zmbackup/bash/NotifyAction.sh: line 68: printf: write error: No= space left on device
/usr/local/lib/zmb= ackup/bash/NotifyAction.sh: line 68: printf: write error: No space left on = device
/usr/local/lib/zmbackup/bash/Noti= fyAction.sh: line 69: printf: write error: No space left on device
/usr/local/lib/zmbackup/bash/NotifyAction.sh: li= ne 69: printf: write error: No space left on device
/usr/local/lib/zmbackup/bash/NotifyAction.sh: line 70: printf: = write error: No space left on device
/us= r/local/lib/zmbackup/bash/NotifyAction.sh: line 70: printf: write error: No= space left on device
/usr/local/lib/zmb= ackup/bash/NotifyAction.sh: line 71: printf: write error: No space left on = device
/usr/local/lib/zmbackup/bash/Noti= fyAction.sh: line 71: printf: write error: No space left on device
/usr/local/lib/zmbackup/bash/NotifyAction.sh: li= ne 72: printf: write error: No space left on device
/usr/local/lib/zmbackup/bash/NotifyAction.sh: line 72: printf: = write error: No space left on device
/us= r/local/lib/zmbackup/bash/NotifyAction.sh: line 73: printf: write error: No= space left on device
/usr/local/lib/zmb= ackup/bash/NotifyAction.sh: line 73: printf: write error: No space left on = device
/usr/local/lib/zmbackup/bash/Noti= fyAction.sh: line 74: printf: write error: No space left on device
cat: write error: No space left on device

[zimbra@ntplanta1 ~]$ df -lh
Filesystem Size Used Avail Use% Mounted on
/dev/md126p2 79G 75G 0 100% /
tmpfs = 5.8G 0 5.8G 0% /dev/shm
/dev/md126p1 194= M 75M 109M 41% /boot
/dev/mapper/VolGrou= p00-LogVol00
787G 691G 56G 93% /opt

<= p style=3D"box-sizing:border-box;margin-top:0px;margin-bottom:16px;color:rg= b(36,41,46);font-family:-apple-system,BlinkMacSystemFont,"Segoe UI&quo= t;,Helvetica,Arial,sans-serif,"Apple Color Emoji","Segoe UI = Emoji";font-size:14px">ISSUE TYPE:=C2=A0- Bug Report

ENVIRONMENT VERSION<= /span>

  • Zmbackup Version: zmbackup version: 1.2.3=
  • = Zimbra Version: Release 8.7.11_GA_1854.RHEL6_64_20170531151956 RHEL6_64 FOS= S edition, Patch 8.7.11_P14.
  • Linux Distribution & Version: CentOS 6.10

SUMMARY: initial full backup stop beca= use parallel fill up root partition with temps

SUMMARY: full backup with tiny root partition a huge /opt

--00000000000094715205a8479fec-- From MAILER-DAEMON Thu Jun 18 09:14:12 2020 Received: from list by lists.gnu.org with archive (Exim 4.90_1) id 1jluMu-0005KX-KQ for mharc-bug-parallel@gnu.org; Thu, 18 Jun 2020 09:14:12 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:37154) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1jlkOZ-000732-Ao for bug-parallel@gnu.org; Wed, 17 Jun 2020 22:35:15 -0400 Received: from m12-13.163.com ([220.181.12.13]:32818) by eggs.gnu.org with esmtps (TLS1.2:DHE_RSA_AES_256_CBC_SHA1:256) (Exim 4.90_1) (envelope-from ) id 1jlkOS-000759-OU for bug-parallel@gnu.org; Wed, 17 Jun 2020 22:35:12 -0400 DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=163.com; s=s110527; h=MIME-Version:From:Subject:Date:Message-Id; bh=cfJid 6Zn3hVGh677TsckiRlVznZ3H+RZZc+y0VZ0FQI=; b=Hh3nIPy3d32YQSHa1SGRR 5k5TlKSAGSWGfBFM3DhWRlxaLN98FKljW8B72Rfe617T81cWrlS0qtbF9qMXgvEd RfuWHN9fmgt15mjJVO9EDAthjXf5HUYQPWXE/bi/boAOKrSoENQ6V6PKzOT8Disy R7usaenzW47CB0XdQyG2VQ= Received: from [IPv6:::ffff:192.168.1.106] (unknown [202.120.79.147]) by smtp9 (Coremail) with SMTP id DcCowAB3fGBAz+peUNOjGA--.46267S3; Thu, 18 Jun 2020 10:19:47 +0800 (CST) MIME-Version: 1.0 To: "bug-parallel@gnu.org" From: Li Zifeng Subject: conda install error Date: Thu, 18 Jun 2020 10:19:47 +0800 Importance: normal X-Priority: 3 Content-Type: multipart/alternative; boundary="_EBBADA3A-7FD1-4C39-AC43-2808080CF6A0_" X-CM-TRANSID: DcCowAB3fGBAz+peUNOjGA--.46267S3 Message-Id: <5EEACF43.EFB879.19826@m12-13.163.com> X-Coremail-Antispam: 1Uf129KBjvJXoW7try5CrykJw1DZr17KF1xKrg_yoW8Cryrpr WfJF17tw1Utr13Xr1UJw4UXr13Jr4UGr1UJF4UJr1rtr1UCF1xGr1Uta40yFyUWryUGw18 tr1UJr18Xry7trDanT9S1TB71UUUUUUqnTZGkaVYY2UrUUUUjbIjqfuFe4nvWSU5nxnvy2 9KBjDUYxBIdaVFxhVjvjDU0xZFpf9x0zR-18LUUUUU= X-Originating-IP: [202.120.79.147] X-CM-SenderInfo: pol2xw5hqjsiqzzvqiywtou0bp/1tbiVwRHolethK7m+wAAs7 Received-SPF: pass client-ip=220.181.12.13; envelope-from=lizifeng_1995@163.com; helo=m12-13.163.com X-detected-operating-system: by eggs.gnu.org: First seen = 2020/06/17 22:19:48 X-ACL-Warn: Detected OS = Linux 3.1-3.10 [fuzzy] X-Spam_score_int: -27 X-Spam_score: -2.8 X-Spam_bar: -- X-Spam_report: (-2.8 / 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, FREEMAIL_ENVFROM_END_DIGIT=0.25, FREEMAIL_FROM=0.001, HTML_MESSAGE=0.001, RCVD_IN_DNSWL_NONE=-0.0001, RCVD_IN_MSPIKE_H2=-1, SPF_HELO_NONE=0.001, SPF_PASS=-0.001 autolearn=_AUTOLEARN X-Spam_action: no action X-Mailman-Approved-At: Thu, 18 Jun 2020 09:14:12 -0400 X-BeenThere: bug-parallel@gnu.org X-Mailman-Version: 2.1.23 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Thu, 18 Jun 2020 02:35:16 -0000 --_EBBADA3A-7FD1-4C39-AC43-2808080CF6A0_ Content-Transfer-Encoding: quoted-printable Content-Type: text/plain; charset="utf-8" Hi=EF=BC=8Chere I tried to install the GNU parallel in my conda_env. It seemed to be instal= led successfully, but it could not work. I can=E2=80=99t find what=E2=80=99= s wrong with it. Can you help me? My codes is as follows: (cnmf_env) [mxqian@fnode012 ~]$ conda install -c conda-forge parallel Collecting package metadata (current_repodata.json): done Solving environment: done ## Package Plan ## environment location: /sibcb1/mxqianlab1/common/anaconda/envs/cnmf_env added / updated specs: - parallel The following packages will be downloaded: package | build ---------------------------|----------------- openssl-1.0.2u | h516909a_0 3.2 MB conda-for= ge ------------------------------------------------------------ Total: 3.2 MB The following NEW packages will be INSTALLED: ca-certificates conda-forge/linux-64::ca-certificates-2020.4.5.2-hecda= 079_0 The following packages will be UPDATED: certifi pkgs/free::certifi-2016.2.28-py36_0 --> conda-forge= ::certifi-2020.4.5.2-py36h9f0ad1d_0 openssl pkgs/free::openssl-1.0.2l-0 --> conda-forge= ::openssl-1.0.2u-h516909a_0 parallel bioconda::parallel-20170422-pl5.22.0_0 --> conda-forge= ::parallel-20200522-0 Proceed ([y]/n)? y Downloading and Extracting Packages openssl-1.0.2u | 3.2 MB | ########################################= ###########################################################################= ###########################################################################= ###### | 100%=20 Preparing transaction: done Verifying transaction: done Executing transaction: done (cnmf_env) [mxqian@fnode012 ~]$ parallel --version Fcntl.c: loadable library and perl binaries are mismatched (got handshake k= ey 0xdb80080, needed 0xdb00080) Sent from Mail for Windows 10 --_EBBADA3A-7FD1-4C39-AC43-2808080CF6A0_ Content-Transfer-Encoding: quoted-printable Content-Type: text/html; charset="utf-8"

Hi=EF=BC= =8Chere

I tried to install the GNU parallel in my conda_env. It seemed to be inst= alled successfully, but it could not work. I can=E2=80=99t find what=E2=80= =99s wrong with it. Can you help me?

My codes is as follows:

(cnmf_env) [mxqian@fnode012 ~]$ conda install -c conda-forge par= allel

Collecting package = metadata (current_repodata.json): done

Solving environment: done

 

## Package Plan ##

 

=C2= =A0 environment location: /sibcb1/mxqianlab1/common/anaconda/envs/cnmf_env<= /span>

 <= /p>

=C2=A0 added / updated specs:

=C2=A0=C2=A0=C2=A0 - parall= el

 

 

<= p class=3DMsoNormal>The following packages will be downl= oaded:

 <= /span>

=C2=A0=C2=A0=C2=A0 packag= e=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0= =C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0 |=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0= =C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0 build

<= span lang=3DEN-US>=C2=A0=C2=A0=C2=A0 ---------------------------|----------= -------

=C2=A0=C2=A0=C2= =A0 openssl-1.0.2u=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2= =A0=C2=A0=C2=A0 |=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0 h516909a_0=C2=A0=C2= =A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0 3.2 MB=C2=A0 conda-forge

=

=C2=A0=C2=A0=C2=A0 ----------------= --------------------------------------------

=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0= =C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2= =A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0= =C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0 Total:=C2=A0=C2=A0=C2=A0= =C2=A0=C2=A0=C2=A0=C2=A0=C2=A0 3.2 MB

 

The following NEW packages will be INSTALLED:

 

=C2=A0 ca-certificates=C2=A0=C2=A0=C2=A0 conda-forge/li= nux-64::ca-certificates-2020.4.5.2-hecda079_0

 

The following packages will be UPDATED:

 

=C2=A0 certifi=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2= =A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0 pkgs/free::certifi-2016.2.28-= py36_0 --> conda-forge::certifi-2020.4.5.2-py36h9f0ad1d_0

=C2=A0 openssl=C2=A0=C2=A0=C2=A0=C2=A0= =C2=A0=C2=A0=C2=A0=C2=A0 =C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0= =C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0pkgs/free::openssl-1.0.2l-0 --> cond= a-forge::openssl-1.0.2u-h516909a_0

=C2=A0 parallel=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0= =C2=A0=C2=A0 bioconda::parallel-20170422-pl5.22.0_0 --> conda-forge::par= allel-20200522-0

&nb= sp;

 

Proceed ([y]/n)? y

 

=

 

Downloading and Extracting Packages=

openssl-1.0.2u=C2=A0=C2=A0=C2= =A0=C2=A0=C2=A0=C2=A0 | 3.2 MB=C2=A0=C2=A0=C2=A0 | ########################= ###########################################################################= ###########################################################################= ###################### | 100%

Preparing transaction: done

Verifying transaction: done

Executing transaction: done

(cnmf_env) [mxqian@fnode012 ~]$ parallel --version

Fcntl.c: loadable library and perl= binaries are mismatched (got handshake key 0xdb80080, needed 0xdb00080)

 

Sent from Mail for Windows 10

 

= --_EBBADA3A-7FD1-4C39-AC43-2808080CF6A0_-- From MAILER-DAEMON Mon Jun 22 18:50:17 2020 Received: from list by lists.gnu.org with archive (Exim 4.90_1) id 1jnVGb-0001BT-M0 for mharc-bug-parallel@gnu.org; Mon, 22 Jun 2020 18:50:17 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:55100) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1jnVGa-00019t-Gt; Mon, 22 Jun 2020 18:50:16 -0400 Received: from mail-oi1-f195.google.com ([209.85.167.195]:40906) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1jnVGY-0002U5-Dd; Mon, 22 Jun 2020 18:50:16 -0400 Received: by mail-oi1-f195.google.com with SMTP id t25so17161885oij.7; Mon, 22 Jun 2020 15:50:13 -0700 (PDT) X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20161025; h=x-gm-message-state:mime-version:from:date:message-id:subject:to; bh=mU+yPEUi0RykRyfjp5AtNDef/TwwDpeY39FQ2GVWhnM=; b=gVZiD4F/AXwsQX6HE17uZLcK3hsTdC0hwMcR0PlJaHzHChB41w/w8Pgzc9f+3JN93e 6mkC77Hm1AyCQa8s5S/QETdFNB8AVuPNrz21x3zD2uRW96luOczjww/OUfIrbRD3YzEz yHOxREgc/NmXZlD8MbtnIPlSWRLyaQBzIpD8Zsytp4cN4S4USsMobNweQNcvyhfzcAYb J81nY5jI5b+K0uz+idOSTtf10RGeCPIdPYh2kgRFE89+DlL3ismRpEn6GtiwvsaBdbOo VwbeU0fbl/Mj+GaPOs6ZdOicZ3xH/4k77NFtEAAT0v0O0tJTsGCfLZtzJZ2pj3DLbdq3 8vog== X-Gm-Message-State: AOAM531v5dx8ry8CeVp3U/T670HwUEr/HQN4TeDXRYH+Y9yC1EDdDwsO NoM/lTtaoYncun0H79/OF/2AhW+JurjkZc8HJ6xMPIknRcM= X-Google-Smtp-Source: ABdhPJx0a2cG2C0XEivSsSnayNaNLIuFw+NuMwg+zyd2A1S/we7Ls11jpBnQy6O0t+S1WgM7oQiQNRb+G9zvbWrSiqY= X-Received: by 2002:aca:5152:: with SMTP id f79mr13846124oib.146.1592866212195; Mon, 22 Jun 2020 15:50:12 -0700 (PDT) MIME-Version: 1.0 From: Ole Tange Date: Tue, 23 Jun 2020 00:50:00 +0200 Message-ID: Subject: GNU Parallel 20200622 ('Floyd') released To: bug-parallel , parallel Content-Type: text/plain; charset="UTF-8" Received-SPF: pass client-ip=209.85.167.195; envelope-from=ole.tange@gmail.com; helo=mail-oi1-f195.google.com X-detected-operating-system: by eggs.gnu.org: First seen = 2020/06/22 18:50:12 X-ACL-Warn: Detected OS = Linux 2.2.x-3.x [generic] [fuzzy] X-Spam_score_int: 1 X-Spam_score: 0.1 X-Spam_bar: / X-Spam_report: (0.1 / 5.0 requ) BAYES_00=-1.9, FREEMAIL_FORGED_FROMDOMAIN=1, FREEMAIL_FROM=0.001, HEADER_FROM_DIFFERENT_DOMAINS=1, PDS_BTC_ID=1, RCVD_IN_DNSWL_NONE=-0.0001, RCVD_IN_MSPIKE_H2=-1, SPF_HELO_NONE=0.001, SPF_PASS=-0.001, URIBL_BLOCKED=0.001 autolearn=_AUTOLEARN X-Spam_action: no action X-BeenThere: bug-parallel@gnu.org X-Mailman-Version: 2.1.23 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Mon, 22 Jun 2020 22:50:16 -0000 GNU Parallel 20200622 ('Floyd') has been released. It is available for download at: http://ftpmirror.gnu.org/parallel/ Quote of the month: Who needs spark when GNU Parallel exists -- MatthijsB @MatthijsBrs@twitter New in this release: * No new functionality * Bug fixes and man page updates. News about GNU Parallel: * GNU Parallel is used at NERSC: https://www.nersc.gov/assets/Uploads/08-Workflows-20200616.pdf * Resumable batch jobs with GNU Parallel https://igor.io/parallel/ * Lab Meeting technical talk https://www.slideshare.net/hoffmanlab/gnu-parallel-194030490 * Open Sky Software Website Credits https://www.openskysoftware.com/site-credits.htm * Speed up your Python Scripts using Ubuntu and GNU Parallel https://ecce.esri.ca/wpecce/2019/12/24/speed-up-your-python-scripts-using-ubuntu-and-gnu-parallel/ * Indispensable command-line tools https://negfeedback.blogspot.com/2020/05/indispensable-command-line-tools.html * GNU Parallel for simulations http://pdebuyl.be/blog/2020/gnu-parallel-for-simulations.html * Introduction to GNU parallel https://bioinformaticsworkbook.org/Appendix/GNUparallel/GNU_parallel_examples.html * Bug fixes and man page updates. Get the book: GNU Parallel 2018 http://www.lulu.com/shop/ole-tange/gnu-parallel-2018/paperback/product-23558902.html GNU Parallel - For people who live life in the parallel lane. = About GNU Parallel = GNU Parallel is a shell tool for executing jobs in parallel using one or more computers. A job can be a single command or a small script that has to be run for each of the lines in the input. The typical input is a list of files, a list of hosts, a list of users, a list of URLs, or a list of tables. A job can also be a command that reads from a pipe. GNU Parallel can then split the input and pipe it into commands in parallel. If you use xargs and tee today you will find GNU Parallel very easy to use as GNU Parallel is written to have the same options as xargs. If you write loops in shell, you will find GNU Parallel may be able to replace most of the loops and make them run faster by running several jobs in parallel. GNU Parallel can even replace nested loops. GNU Parallel makes sure output from the commands is the same output as you would get had you run the commands sequentially. This makes it possible to use output from GNU Parallel as input for other programs. For example you can run this to convert all jpeg files into png and gif files and have a progress bar: parallel --bar convert {1} {1.}.{2} ::: *.jpg ::: png gif Or you can generate big, medium, and small thumbnails of all jpeg files in sub dirs: find . -name '*.jpg' | parallel convert -geometry {2} {1} {1//}/thumb{2}_{1/} :::: - ::: 50 100 200 You can find more about GNU Parallel at: http://www.gnu.org/s/parallel/ You can install GNU Parallel in just 10 seconds with: $ (wget -O - pi.dk/3 || lynx -source pi.dk/3 || curl pi.dk/3/ || \ fetch -o - http://pi.dk/3 ) > install.sh $ sha1sum install.sh | grep 3374ec53bacb199b245af2dda86df6c9 12345678 3374ec53 bacb199b 245af2dd a86df6c9 $ md5sum install.sh | grep 029a9ac06e8b5bc6052eac57b2c3c9ca 029a9ac0 6e8b5bc6 052eac57 b2c3c9ca $ sha512sum install.sh | grep f517006d9897747bed8a4694b1acba1b 40f53af6 9e20dae5 713ba06c f517006d 9897747b ed8a4694 b1acba1b 1464beb4 60055629 3f2356f3 3e9c4e3c 76e3f3af a9db4b32 bd33322b 975696fc e6b23cfb $ bash install.sh Watch the intro video on http://www.youtube.com/playlist?list=PL284C9FF2488BC6D1 Walk through the tutorial (man parallel_tutorial). Your command line will love you for it. When using programs that use GNU Parallel to process data for publication please cite: O. Tange (2018): GNU Parallel 2018, March 2018, https://doi.org/10.5281/zenodo.1146014. If you like GNU Parallel: * Give a demo at your local user group/team/colleagues * Post the intro videos on Reddit/Diaspora*/forums/blogs/ Identi.ca/Google+/Twitter/Facebook/Linkedin/mailing lists * Get the merchandise https://gnuparallel.threadless.com/designs/gnu-parallel * Request or write a review for your favourite blog or magazine * Request or build a package for your favourite distribution (if it is not already there) * Invite me for your next conference If you use programs that use GNU Parallel for research: * Please cite GNU Parallel in you publications (use --citation) If GNU Parallel saves you money: * (Have your company) donate to FSF https://my.fsf.org/donate/ = About GNU SQL = GNU sql aims to give a simple, unified interface for accessing databases through all the different databases' command line clients. So far the focus has been on giving a common way to specify login information (protocol, username, password, hostname, and port number), size (database and table size), and running queries. The database is addressed using a DBURL. If commands are left out you will get that database's interactive shell. When using GNU SQL for a publication please cite: O. Tange (2011): GNU SQL - A Command Line Tool for Accessing Different Databases Using DBURLs, ;login: The USENIX Magazine, April 2011:29-32. = About GNU Niceload = GNU niceload slows down a program when the computer load average (or other system activity) is above a certain limit. When the limit is reached the program will be suspended for some time. If the limit is a soft limit the program will be allowed to run for short amounts of time before being suspended again. If the limit is a hard limit the program will only be allowed to run when the system is below the limit.