ofs.trace write xrootd.trace fsand I created simple script [1] that use just xrdcp to copy 1MB file
CURR=$(date +%Y%m%d%H%M%S.%N)
export XRD_LOGLEVEL=Dump
export XRD_LOGMASK=All
export XRD_LOGFILE=1M.${CURR}.dump
xrdcp "file:///tmp/1M" "root://golias100.farm.particle.cz//dpm/farm.particle.cz/home/atlas/1M.xrdcp.${CURR}"
Even this simple code create corrupted files at our DPM storage, e.g.
following 1.5GB file[root@dpmpool1 ~]# ls -la /mnt/fs1/atlas/2019-09-11/1M.xrdcp.20190911070503.057846787.143302.1568178311 -rw-rw---- 1 dpmmgr dpmmgr 1761607680 Sep 11 07:05 /mnt/fs1/atlas/2019-09-11/1M.xrdcp.20190911070503.057846787.143302.1568178311
[root@dpmpool1 ~]# du --block-size=1 /mnt/fs1/atlas/2019-09-11/1M.xrdcp.20190911070503.057846787.143302.1568178311 1048576 /mnt/fs1/atlas/2019-09-11/1M.xrdcp.20190911070503.057846787.143302.1568178311
[root@dpmpool1 ~]# grep condor.114208:47 /var/log/xrootd/dpmdisk/xrootd.log 190911 07:05:12 31717 XrootdXeq: condor.114208:47@[2001:718:401:6e03::1:82] pub IP64 login as /DC=ch/DC=cern/OU=Organic Units/OU=Users/CN=vokac/CN=610071/CN=Petr Vokac 190911 07:05:12 31717 condor.114208:47@[2001:718:401:6e03::1:82] XrootdProtocol: open unmat /dpm/farm.particle.cz/home/atlas/1M.xrdcp.20190911070503.057846787?dpm.chunk0=0,0,dpmpool1.farm.particle.cz:/mnt/fs1/atlas/2019-09-11/1M.xrdcp.20190911070503.057846787.143302.1568178311%3fsfn=%252Fdpm%252Ffarm.particle.cz%252Fhome%252Fatlas%252F1M.xrdcp.20190911070503.057846787&dpm.dhost=dpmpool1.farm.particle.cz&dpm.hv2=NBoSW+W5T7Eti/8yeLbu0w==&dpm.loc=1&dpm.nonce=870b737&dpm.put=1&dpm.time=1568178311&oss.asize=1048576 190911 07:05:12 31717 condor.114208:47@[2001:718:401:6e03::1:82] XrootdProtocol: fh=0 write 1048576@0 190911 07:05:20 23385 condor.114208:47@[2001:718:401:6e03::1:82] XrootdProtocol: close rc=0 fh=0 190911 07:05:20 23385 condor.114208:47@[2001:718:401:6e03::1:82] XrootdFile: closing w /dpm/farm.particle.cz/home/atlas/1M.xrdcp.20190911070503.057846787 190911 07:05:20 23385 XrootdXeq: condor.114208:47@[2001:718:401:6e03::1:82] disc 0:00:09Client side details are in attachment. I have more examples [2] with following wrong size
1M.20190911005425.364456793.bad ... Wed Sep 11 00:54:31 CEST 2019 ERROR BAD SIZE 1124073472 1M.20190911010555.932867187.bad ... Wed Sep 11 01:06:10 CEST 2019 ERROR BAD SIZE 0 1M.20190911012755.924566113.bad ... Wed Sep 11 01:28:08 CEST 2019 ERROR BAD SIZE 917504 1M.20190911014400.800640006.bad ... Wed Sep 11 01:44:24 CEST 2019 ERROR BAD SIZE 917504 1M.20190911014622.520944167.bad ... Wed Sep 11 01:46:40 CEST 2019 ERROR BAD SIZE 3741319168 1M.20190911014901.149846614.bad ... Wed Sep 11 01:49:26 CEST 2019 ERROR BAD SIZE 917504 1M.20190911015203.831921517.bad ... Wed Sep 11 01:52:29 CEST 2019 ERROR BAD SIZE 917504 1M.20190911020907.396911618.bad ... Wed Sep 11 02:09:32 CEST 2019 ERROR BAD SIZE 3791650816 1M.20190911021159.705868237.bad ... Wed Sep 11 02:12:27 CEST 2019 ERROR BAD SIZE 917504 1M.20190911021251.426135326.bad ... Wed Sep 11 02:13:13 CEST 2019 ERROR BAD SIZE 917504 1M.20190911021737.228623622.bad ... Wed Sep 11 02:18:01 CEST 2019 ERROR BAD SIZE 771751936 1M.20190911022813.246485614.bad ... Wed Sep 11 02:28:40 CEST 2019 ERROR BAD SIZE 917504 1M.20190911025601.833862548.bad ... Wed Sep 11 02:56:20 CEST 2019 ERROR BAD SIZE 1694498816 1M.20190911030159.405097568.bad ... Wed Sep 11 03:02:28 CEST 2019 ERROR BAD SIZE 5016387584 1M.20190911030913.965667783.bad ... Wed Sep 11 03:09:54 CEST 2019 ERROR BAD SIZE 218103808 1M.20190911030955.983267709.bad ... Wed Sep 11 03:10:01 CEST 2019 ERROR BAD SIZE 15946576 1M.20190911031027.126885413.bad ... Wed Sep 11 03:10:55 CEST 2019 ERROR BAD SIZE 1459617792 1M.20190911031535.972442346.bad ... Wed Sep 11 03:16:03 CEST 2019 ERROR BAD SIZE 24848976 1M.20190911032921.385479218.bad ... Wed Sep 11 03:29:37 CEST 2019 ERROR BAD SIZE 352321536 1M.20190911050741.513088940.bad ... Wed Sep 11 05:07:57 CEST 2019 ERROR BAD SIZE 917504 1M.20190911053936.964249354.bad ... Wed Sep 11 05:39:56 CEST 2019 ERROR BAD SIZE 917504 1M.20190911055721.511952376.bad ... Wed Sep 11 05:57:39 CEST 2019 ERROR BAD SIZE 917504 1M.20190911060520.998050566.bad ... Wed Sep 11 06:05:27 CEST 2019 ERROR BAD SIZE 2292134 1M.20190911061254.989202949.bad ... Wed Sep 11 06:13:20 CEST 2019 ERROR BAD SIZE 917504 1M.20190911062609.645848195.bad ... Wed Sep 11 06:26:21 CEST 2019 ERROR BAD SIZE 1207959552 1M.20190911063849.007385225.bad ... Wed Sep 11 06:38:55 CEST 2019 ERROR BAD SIZE 917504 1M.20190911063907.064936962.bad ... Wed Sep 11 06:39:15 CEST 2019 ERROR BAD SIZE 26413431 1M.20190911065351.412877379.bad ... Wed Sep 11 06:54:00 CEST 2019 ERROR BAD SIZE 917504 1M.20190911070503.057846787.bad ... Wed Sep 11 07:05:20 CEST 2019 ERROR BAD SIZE 1761607680 1M.20190911070525.814871895.bad ... Wed Sep 11 07:05:36 CEST 2019 ERROR BAD SIZE 917504 1M.20190911070634.781534227.bad ... Wed Sep 11 07:06:42 CEST 2019 ERROR BAD SIZE 3758096384 1M.20190911072040.275437982.bad ... Wed Sep 11 07:21:07 CEST 2019 ERROR BAD SIZE 786432 1M.20190911072340.253938152.bad ... Wed Sep 11 07:24:00 CEST 2019 ERROR BAD SIZE 917504 1M.20190911074911.208877064.bad ... Wed Sep 11 07:49:40 CEST 2019 ERROR BAD SIZE 388133552 1M.20190911080141.583691537.bad ... Wed Sep 11 08:01:56 CEST 2019 ERROR BAD SIZE 917504 1M.20190911082145.247040374.bad ... Wed Sep 11 08:22:17 CEST 2019 ERROR BAD SIZE 786432 1M.20190911085008.626914519.bad ... Wed Sep 11 08:50:29 CEST 2019 ERROR BAD SIZE 917504Petr
[log in to unmask] type="cite">Hi Petr,If you also specify in the config filexrootd.trace fsthen we will get a much earlier snapshot of the offset and length. This will allow us to tell whether the data is getting corrupted before it reaches the server or afterward. Could you do that (at least for one test) to see where the corruption may happen?AndyFrom: [log in to unmask] href="mailto:[log in to unmask]" moz-do-not-send="true">Petr VokacSent: Sunday, September 08, 2019 1:46 AMTo: [log in to unmask] href="mailto:[log in to unmask]" moz-do-not-send="true">andrea manzi ; [log in to unmask] href="mailto:[log in to unmask]" moz-do-not-send="true">[log in to unmask] ; [log in to unmask] href="mailto:[log in to unmask]" moz-do-not-send="true">Andrew HanushevskyCc: [log in to unmask] href="mailto:[log in to unmask]" moz-do-not-send="true">dpm-devel ; [log in to unmask] href="mailto:[log in to unmask]" moz-do-not-send="true">[log in to unmask]Subject: Re: Uploaded file 128TB on filesystemI just found one file where problem with offset occurred in the middle of transfer (not at the beginning):190907 20:03:53 25211 XrootdXeq: atlasprd.2817:168@[2001:718:401:6e03::1:51] pub IP64 login as /DC=ch/DC=cern/OU=Organic Units/OU=Users/CN=atlpilo1/CN=614260/CN=Robot: ATLAS Pilot1 190907 20:03:55 25211 atlasprd.2817:168@[2001:718:401:6e03::1:51] ofs_write: 262144@0 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc16_13TeV/9c/6a/AOD.18892557._000593.pool.root.1.rucio.upload 190907 20:03:55 25211 atlasprd.2817:168@[2001:718:401:6e03::1:51] ofs_write: 262144@262144 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc16_13TeV/9c/6a/AOD.18892557._000593.pool.root.1.rucio.upload 190907 20:03:55 25211 atlasprd.2817:168@[2001:718:401:6e03::1:51] ofs_write: 262144@524288 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc16_13TeV/9c/6a/AOD.18892557._000593.pool.root.1.rucio.upload 190907 20:03:55 25211 atlasprd.2817:168@[2001:718:401:6e03::1:51] ofs_write: 262144@786432 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc16_13TeV/9c/6a/AOD.18892557._000593.pool.root.1.rucio.upload 190907 20:03:55 25211 atlasprd.2817:168@[2001:718:401:6e03::1:51] ofs_write: 262144@1048576 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc16_13TeV/9c/6a/AOD.18892557._000593.pool.root.1.rucio.upload ... 190907 20:40:35 31589 atlasprd.2817:168@[2001:718:401:6e03::1:51] ofs_write: 262144@2952003584 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc16_13TeV/9c/6a/AOD.18892557._000593.pool.root.1.rucio.upload 190907 20:40:53 31589 atlasprd.2817:168@[2001:718:401:6e03::1:51] ofs_write: 262144@2952265728 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc16_13TeV/9c/6a/AOD.18892557._000593.pool.root.1.rucio.upload 190907 20:41:55 31609 atlasprd.2817:168@[2001:718:401:6e03::1:51] ofs_write: 262144@2952265728 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc16_13TeV/9c/6a/AOD.18892557._000593.pool.root.1.rucio.upload 190907 20:42:05 25089 atlasprd.2817:168@[2001:718:401:6e03::1:51] ofs_write: 1919238960@7379557499097268579 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc16_13TeV/9c/6a/AOD.18892557._000593.pool.root.1.rucio.upload 190907 20:42:13 25118 atlasprd.2817:168@[2001:718:401:6e03::1:51] ofs_write: 1919238960@7379557499097268579 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc16_13TeV/9c/6a/AOD.18892557._000593.pool.root.1.rucio.upload 190907 20:42:13 25118 atlasprd.2817:168@[2001:718:401:6e03::1:51] ofs_write: 262144@2953314304 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc16_13TeV/9c/6a/AOD.18892557._000593.pool.root.1.rucio.upload 190907 20:42:13 25118 atlasprd.2817:168@[2001:718:401:6e03::1:51] ofs_write: 262144@2953576448 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc16_13TeV/9c/6a/AOD.18892557._000593.pool.root.1.rucio.upload 190907 20:42:20 25118 atlasprd.2817:168@[2001:718:401:6e03::1:51] ofs_write: 262144@2953576448 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc16_13TeV/9c/6a/AOD.18892557._000593.pool.root.1.rucio.uploadWhole xrootd.log for this transfer available at http://novastore.farm.particle.cz/tmp/xrootd_bigfile_wrong_offset_in_the_middle_of_transfer.txt
Petr
On 9/8/19 10:25 AM, Petr Vokac wrote:[log in to unmask] type="cite">I executed basically following python code that from bash script in a loopimport gfal2 ctx = gfal2.creat_context() ctx.set_opt_string("XROOTD PLUGIN", "XRD.WANTPROT", "gsi,unix") params = ctx.transfer_parameters() params.timeout = 60 ctx.filecopy(params, "file:///tmp/1M", "root://golias100.farm.particle.cz/dpm/farm.particle.cz/home/atlas/1M")and after a while new corrupted files appeared at our storage including one big file:[vokac@ui1 ~]$ gfal-ls -l 'davs://golias100.farm.particle.cz/dpm/farm.particle.cz/home/atlas/1M.01556.20190907190118.646902567.00000' -rw-rw-r-- 0 1310 5281 139703410778112 Sep 7 19:01 davs://golias100.farm.particle.cz/dpm/farm.particle.cz/home/atlas/1M.01556.20190907190118.646902567.00000Now I have also debug output from gfal client including XRD_LOGLEVEL=Dump + XRD_LOGMASK=All for this file with xrootd.log on server side:[root@dpmpool19 ~]$ grep condor.39253:171 /var/log/xrootd/dpmdisk/xrootd.log 190907 19:01:19 29645 XrootdXeq: condor.39253:171@[2001:718:401:6e03::1:82] pub IP64 login as /DC=ch/DC=cern/OU=Organic Units/OU=Users/CN=vokac/CN=610071/CN=Petr Vokac 190907 19:01:22 32625 condor.39253:171@[2001:718:401:6e03::1:82] ofs_write: 1009440128@139703410643808 fn=/dpm/farm.particle.cz/home/atlas/1M.01556.20190907190118.646902567.00000 190907 19:01:23 32625 condor.39253:171@[2001:718:401:6e03::1:82] ofs_write: 131072@131072 fn=/dpm/farm.particle.cz/home/atlas/1M.01556.20190907190118.646902567.00000 190907 19:01:23 32625 condor.39253:171@[2001:718:401:6e03::1:82] ofs_write: 131072@262144 fn=/dpm/farm.particle.cz/home/atlas/1M.01556.20190907190118.646902567.00000 190907 19:01:24 32625 condor.39253:171@[2001:718:401:6e03::1:82] ofs_write: 131072@393216 fn=/dpm/farm.particle.cz/home/atlas/1M.01556.20190907190118.646902567.00000 190907 19:01:24 32625 condor.39253:171@[2001:718:401:6e03::1:82] ofs_write: 131072@524288 fn=/dpm/farm.particle.cz/home/atlas/1M.01556.20190907190118.646902567.00000 190907 19:01:25 32625 condor.39253:171@[2001:718:401:6e03::1:82] ofs_write: 131072@655360 fn=/dpm/farm.particle.cz/home/atlas/1M.01556.20190907190118.646902567.00000 190907 19:01:25 32625 condor.39253:171@[2001:718:401:6e03::1:82] ofs_write: 131072@786432 fn=/dpm/farm.particle.cz/home/atlas/1M.01556.20190907190118.646902567.00000 190907 19:01:25 32625 condor.39253:171@[2001:718:401:6e03::1:82] ofs_write: 131072@917504 fn=/dpm/farm.particle.cz/home/atlas/1M.01556.20190907190118.646902567.00000 190907 19:01:26 32625 XrootdXeq: condor.39253:171@[2001:718:401:6e03::1:82] disc 0:00:07This file was transferred from mff82.farm.particle.cz (2001:718:401:6e03::1:82) to the storage dpmpool19.farm.particle.cz (2001:718:401:6017:2::19) and both machines use xrootd-4.9.1-1.el7.x86_64 and mff82 use gfal2-2.16.3-1.el7.x86_64
I also tried to calculate adler32 for data blocks from positions logged by server and result match source data checksum. When I look at other transfers finished with "SUCCESS" but with the filesize different from source file I can see that problems always occurs only with first "ofs_write" log line where size@offset contains wrong numbers.
Attached files:
1M.01556.20190907190118.646902567.00000.dump ... xrd with dump log level
1M.01556.20190907190118.646902567.00000.log ... gfal2 verbose logging (+ few log lines from my script)
1M.01556.20190907190118.646902567.00000.xrootd.long ... dpmpool19 xrootd.log
I have more examples of successfully transferred files with wrong size (sometimes bigger than original 1M size and sometimes smaller):
07 Sep 18:39:33.879 [ERROR] dpmpool1.farm.particle.cz BAD SIZE 917504
07 Sep 18:40:45.039 [ERROR] dpmpool21.farm.particle.cz BAD SIZE 917504
07 Sep 18:41:22.555 [ERROR] dpmpool21.farm.particle.cz BAD SIZE 917504
07 Sep 18:41:39.248 [ERROR] dpmpool21.farm.particle.cz BAD SIZE 917504
07 Sep 18:56:51.113 [ERROR] dpmpool24.farm.particle.cz BAD SIZE 917504
07 Sep 18:58:04.436 [ERROR] dpmpool1.farm.particle.cz BAD SIZE 393194936
07 Sep 19:01:25.908 [ERROR] dpmpool19.farm.particle.cz BAD SIZE 139703410778112
07 Sep 19:02:17.183 [ERROR] dpmpool24.farm.particle.cz BAD SIZE 0
07 Sep 19:02:53.014 [ERROR] dpmpool16.farm.particle.cz BAD SIZE 917504
07 Sep 19:03:49.424 [ERROR] dpmpool1.farm.particle.cz BAD SIZE 917504
07 Sep 19:05:47.743 [ERROR] dpmpool21.farm.particle.cz BAD SIZE 13983727
07 Sep 19:15:15.761 [ERROR] dpmpool22.farm.particle.cz BAD SIZE 12752345
07 Sep 19:16:58.898 [ERROR] dpmpool20.farm.particle.cz BAD SIZE 917504
07 Sep 19:18:51.590 [ERROR] dpmpool17.farm.particle.cz BAD SIZE 6302080
07 Sep 19:20:37.006 [ERROR] dpmpool21.farm.particle.cz BAD SIZE 1456153896
07 Sep 19:52:32.553 [ERROR] dpmpool16.farm.particle.cz BAD SIZE 917504
07 Sep 19:53:45.155 [ERROR] dpmpool22.farm.particle.cz BAD SIZE 1000000000
07 Sep 20:11:14.497 [ERROR] dpmpool22.farm.particle.cz BAD SIZE 917504
07 Sep 20:12:51.081 [ERROR] dpmpool20.farm.particle.cz BAD SIZE 917504
07 Sep 20:14:58.090 [ERROR] dpmpool20.farm.particle.cz BAD SIZE 100663296
07 Sep 20:24:57.457 [ERROR] dpmpool1.farm.particle.cz BAD SIZE 917504
07 Sep 20:27:37.596 [ERROR] dpmpool19.farm.particle.cz BAD SIZE 917504
07 Sep 20:28:21.617 [ERROR] dpmpool16.farm.particle.cz BAD SIZE 0
Petr
On 9/5/19 2:44 PM, Petr Vokac wrote:[log in to unmask] type="cite">I'm going to test in a loop uploads with this code and also enabled gfal debug logging from our remote machines that talks with storage through quite saturated network (we never saw same issue from cluster worker nodes that shares room with diskservers). I also saw few transfers that did not create big sparse file, but just failed while comparing checksums after upload and this is also quite suspicious behavior. Petr On 9/5/19 12:57 PM, andrea manzi wrote:Ciao Andrea, we practically do this: ctx = creat_context(... ctx.set_opt_string("XROOTD PLUGIN", "XRD.WANTPROT", "gsi,unix") ctx.mkdir_rec(... ctx.filecopy(.. Is that the gfal transfer API?yup, internally in gfal2 we then use the XrdCl to perform the copy ( both for local files and TPC) today is holiday but we can start investigating with Michal tomorrow or Monday the possible issue cheers AndreaCheers, Mario On 05/09/2019 10:35, andrea manzi wrote:ciao Mario, i guess you are using the gfal2 transfer API in Rucio right ? ( the equivalent to gfal-copy) in gfal2, in the case of the transfer API for xrootd, we don't do much as we just use the xrootd client ( XrdCl::CopyProcess), so we don't touch file offsets. so we may want to investigate if there is a problem in XrdCl. Do you have the logs of the client? If you are using the gfal2 Posix API instead we need to investigate a possible bug there cheers AndreaHi Petr, Andy, once extra piece of information here: Rucio uses the python bindings to the gfal library to upload these files, and de-facto always uses the current stable gfal version that is published on ALRB. Rucio doesn't implement any other upload by itself. Cheers, Mario On 05/09/2019 04:21, Andrew Hanushevsky wrote:Hi Petr, So, look at this line: 190904 17:02:16 22915 atlasprd.2817:152@[2001:718:401:6e03::1:82] ofs_write: 1784104010@6506989258351653185 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc15_5TeV/90/9f/EVNT.18960107._035789.pool.root.1.rucio.upload Why did the application doing the write specify an offset of 5506989258351653185? So, that is the problem and, as you noted, it doesn’t matter whether POSC is on or not. Indeed, it’s the first write to the file and only the first write that suffers from this problem. So, there are two possibilities here: a) there is a bug in the uploader, or b) there was a network data corruption that managed to hit the offset (somewhat unlikely). Andy *From:* Petr Vokac mailto:[log in to unmask] *Sent:* Wednesday, September 04, 2019 12:19 PM *To:* Andrew Hanushevsky mailto:[log in to unmask] *Cc:* dpm-devel mailto:[log in to unmask] ; [log in to unmask] mailto:[log in to unmask] *Subject:* Re: Uploaded file 128TB on filesystem I configured our diskservers with "ofs.trace write" (I did not yet add in xrootd configuraton "ofs.persist hold 0") and today new file appeared on one of our storage servers: *[root@dpmpool1 ~]# grep atlasprd.2817:152 /var/log/xrootd/dpmdisk/xrootd.log* 190904 17:02:08 1894 XrootdXeq: atlasprd.2817:152@[2001:718:401:6e03::1:82] pub IP64 login as /DC=ch/DC=cern/OU=Organic Units/OU=Users/CN=atlpilo1/CN=614260/CN=Robot: ATLAS Pilot1 190904 17:02:16 22915 atlasprd.2817:152@[2001:718:401:6e03::1:82] ofs_write: 1784104010@6506989258351653185 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc15_5TeV/90/9f/EVNT.18960107._035789.pool.root.1.rucio.upload 190904 17:02:16 22915 atlasprd.2817:152@[2001:718:401:6e03::1:82] ofs_write: 262144@262144 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc15_5TeV/90/9f/EVNT.18960107._035789.pool.root.1.rucio.upload 190904 17:02:17 22915 atlasprd.2817:152@[2001:718:401:6e03::1:82] ofs_write: 262144@524288 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc15_5TeV/90/9f/EVNT.18960107._035789.pool.root.1.rucio.upload 190904 17:02:17 22915 atlasprd.2817:152@[2001:718:401:6e03::1:82] ofs_write: 262144@786432 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc15_5TeV/90/9f/EVNT.18960107._035789.pool.root.1.rucio.upload 190904 17:02:17 22915 atlasprd.2817:152@[2001:718:401:6e03::1:82] ofs_write: 262144@1048576 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc15_5TeV/90/9f/EVNT.18960107._035789.pool.root.1.rucio.upload 190904 17:02:17 22915 atlasprd.2817:152@[2001:718:401:6e03::1:82] ofs_write: 262144@1310720 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc15_5TeV/90/9f/EVNT.18960107._035789.pool.root.1.rucio.upload 190904 17:02:17 22915 atlasprd.2817:152@[2001:718:401:6e03::1:82] ofs_write: 262144@1572864 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc15_5TeV/90/9f/EVNT.18960107._035789.pool.root.1.rucio.upload 190904 17:02:17 22915 atlasprd.2817:152@[2001:718:401:6e03::1:82] ofs_write: 262144@1835008 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc15_5TeV/90/9f/EVNT.18960107._035789.pool.root.1.rucio.upload 190904 17:02:17 22915 atlasprd.2817:152@[2001:718:401:6e03::1:82] ofs_write: 135000@2097152 fn=/dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc15_5TeV/90/9f/EVNT.18960107._035789.pool.root.1.rucio.upload 190904 17:07:32 2163 XrootdXeq: atlasprd.2817:152@[2001:718:401:6e03::1:82] disc 0:05:24 *[root@dpmpool1 ~]# ls -la /mnt/fs2/atlas/2019-09-04/EVNT.18960107._035789.pool.root.1.rucio.upload.309650.1567609328* -rw-rw---- 1 dpmmgr dpmmgr 6506989258351919104 Sep 4 17:02 /mnt/fs2/atlas/2019-09-04/EVNT.18960107._035789.pool.root.1.rucio.upload.309650.1567609328 *[root@dpmpool1 ~]# du --block-size=1 /mnt/fs2/atlas/2019-09-04/EVNT.18960107._035789.pool.root.1.rucio.upload.309650.1567609328* 2236416 /mnt/fs2/atlas/2019-09-04/EVNT.18960107._035789.pool.root.1.rucio.upload.309650.1567609328 This file has first 256kb filled with 0x00 (adler32 up to original size 2232152 doesn't match) and this time there is no ofs_Posc in the xrootd.log file. Petr Vokac On 8/19/19 3:24 AM, Andrew Hanushevsky wrote:Hi Petr, The issue here is that the python script (I believe it's python) is disconnecting without closing the file and then reconnecting and writing at a high offset. The log is pretty clear on that. You can verify by adding "ofs.trace write" to see the write offsets (hough it will produce a lot of output). You can also prohibit reconnection by adding this to the persist directive. ofs.persist hold 0 which would delete the file the moment the client disconnects without closing the file. Andy On Sat, 17 Aug 2019, Petr Vokac wrote:Today new "65PB" file appeared on our storage and it was again transferred with xrootd protocol. I can see again same error in the log file: **[root@dpmpool21 ~]# ls -la /mnt/fs4/atlas/2019-08-17/EVNT.18893579._003197.pool.root.1.rucio.upload.234855.1566031522* *-rw-rw---- 1 dpmmgr dpmmgr 72340172838077281 Aug 17 10:48 /mnt/fs4/atlas/2019-08-17/EVNT.18893579._003197.pool.root.1.rucio.upload.234855.1566031522 ***[root@dpmpool21 ~]# grep atlasprd.2757 /var/log/xrootd/dpmdisk/xrootd.log* ... 190817 10:47:55 57803 XrootdXeq: atlasprd.2757:65@[2001:718:401:6e03::1:43] pub IP64 login as /DC=ch/DC=cern/OU=Organic Units/OU=Users/CN=atlpilo1/CN=614260/CN=Robot: ATLAS Pilot1 190817 10:47:55 61859 XrootdXeq: atlasprd.2757:66@[2001:718:401:6e03::1:83] pub IP64 login as /DC=ch/DC=cern/OU=Organic Units/OU=Users/CN=atlpilo1/CN=614260/CN=Robot: ATLAS Pilot1 190817 10:48:52 62233 XrootdXeq: atlasprd.2757:46@[2001:718:401:6e03::1:72] disc 0:00:58 190817 10:48:52 62954 XrootdXeq: atlasprd.2757:25@[2001:718:401:6e03::1:72] disc 0:03:30 190817 10:48:52 57804 XrootdXeq: atlasprd.2757:28@[2001:718:401:6e03::1:72] pub IP64 login as /DC=ch/DC=cern/OU=Organic Units/OU=Users/CN=atlpilo1/CN=614260/CN=Robot: ATLAS Pilot1 190817 10:48:52 57804 ofs_Posc: Creator changed from atlasprd.2757:25@[2001:718:401:6e03::1:72] to atlasprd.2757:28@[2001:718:401:6e03::1:72] for /dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc15_13TeV/8b/f3/EVNT.18893579._003197.pool.root.1.rucio.upload 190817 10:48:53 57803 XrootdXeq: atlasprd.2757:46@[2001:718:401:6017:20:0:14:44] pub IP64 login as /DC=ch/DC=cern/OU=Organic Units/OU=Users/CN=atlpilo1/CN=614260/CN=Robot: ATLAS Pilot1 190817 10:49:01 57818 XrootdXeq: atlasprd.2757:70@[2001:718:401:6017:20:0:11:11] pub IP64 login as /DC=ch/DC=cern/OU=Organic Units/OU=Users/CN=atlpilo1/CN=614260/CN=Robot: ATLAS Pilot1 190817 10:49:07 62954 XrootdXeq: atlasprd.2757:55@[2001:718:401:6e03::1:81] disc 0:10:17 ... Any suggestion how to trace what is causing this behavior? Petr On 7/20/19 7:48 AM, Petr Vokac wrote:Hi, I ran the command you sent me grep "atlasprd.2757:" <logfile> | egrep '2001:718:401:6e03::1:21|2001:718:401:6e03::1:32' > <excerpt> and because the output was not just few lines long I uploaded it to the https://vokac.web.cern.ch/vokac/tmp/dpmpool22.xrootd.log https://vokac.web.cern.ch/vokac/tmp/dpmpool24.xrootd.log These machines on 2001:718:401:6e03::/64 subnet are in remote location (but relatively close with RTT ~ 0.7ms). I can see several ofs_Posc occurrences in the logs of our disknodes during "190717 17:xx:xx" time period: http://vokac.web.cern.ch/vokac/tmp/POSC.txt Petr On 7/19/19 8:51 PM, Andrew Hanushevsky wrote:Hi Petr, Well, POSC says that the client reconnected for writing so not all went well. Can I get the log output for that occurrence as I previously described? Andy On Fri, 19 Jul 2019, Petr Vokac wrote:We are using Rucio download client to transfer job outputs (it is build on top of gfal2 python interface). https://vokac.web.cern.ch/vokac/tmp/dpmpool22.xrootd.log https://vokac.web.cern.ch/vokac/tmp/dpmpool24.xrootd.log this is the full job output unfortunately with minimal gfal2 logging output. https://vokac.web.cern.ch/vokac/tmp/grid.2258136.4.out-from-2001:718:401:6e03::1:21-to-dpmpool22.txt https://vokac.web.cern.ch/vokac/tmp/grid.2255921.7.out-from-2001:718:401:6e03::1:32-to-dpmpool24.txt It looks like according gfal2 transfer was OK 2019-07-17 15:09:17,782 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_xrootd.so loaded with success 2019-07-17 15:09:17,782 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_rfio.so loaded with success 2019-07-17 15:09:17,783 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_gridftp.so loaded with success 2019-07-17 15:09:17,783 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_http.so loaded with success 2019-07-17 15:09:17,783 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_lfc.so loaded with success 2019-07-17 15:09:17,783 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_file.so loaded with success 2019-07-17 15:09:17,784 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_sftp.so loaded with success 2019-07-17 15:09:17,784 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_dcap.so loaded with success 2019-07-17 15:09:17,784 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_srm.so loaded with success 2019-07-17 15:09:17,793 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_xrootd.so loaded with success 2019-07-17 15:09:17,793 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_rfio.so loaded with success 2019-07-17 15:09:17,793 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_gridftp.so loaded with success 2019-07-17 15:09:17,794 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_http.so loaded with success 2019-07-17 15:09:17,794 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_lfc.so loaded with success 2019-07-17 15:09:17,794 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_file.so loaded with success 2019-07-17 15:09:17,794 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_sftp.so loaded with success 2019-07-17 15:09:17,794 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_dcap.so loaded with success 2019-07-17 15:09:17,794 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_srm.so loaded with success 2019-07-17 15:09:17,795 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_xrootd.so loaded with success 2019-07-17 15:09:17,795 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_rfio.so loaded with success 2019-07-17 15:09:17,795 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_gridftp.so loaded with success 2019-07-17 15:09:17,795 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_http.so loaded with success 2019-07-17 15:09:17,796 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_lfc.so loaded with success 2019-07-17 15:09:17,796 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_file.so loaded with success 2019-07-17 15:09:17,796 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_sftp.so loaded with success 2019-07-17 15:09:17,796 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_dcap.so loaded with success 2019-07-17 15:09:17,796 | INFO | copytool_out | gfal2 | connect | [gfal_module_load] plugin /usr/lib64/gfal2-plugins//libgfal_plugin_srm.so loaded with success 2019-07-17 15:09:17,810 | INFO | copytool_out | gfal2 | __gfal2_copy | Event triggered: BOTH GFAL2:CORE:COPY LIST:ENTER 2019-07-17 15:09:17,810 | INFO | copytool_out | gfal2 | __gfal2_copy | Event triggered: BOTH GFAL2:CORE:COPY LIST:ITEM file:///scratch/condor/dir_24031/atlas_HudmF2he/PanDA_Pilot-4419868006/log.18636890._001059.job.log.tgz.1 => root://golias100.farm.particle.cz:1094//dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc15_13TeV/26/98/log.18636890._001059.job.log.tgz.1.rucio.upload 2019-07-17 15:09:17,810 | INFO | copytool_out | gfal2 | __gfal2_copy | Event triggered: BOTH GFAL2:CORE:COPY LIST:EXIT 2019-07-17 15:09:17,811 | INFO | Dummy-2 | gfal2 | (unknown function) | Event triggered: BOTH xroot TRANSFER:ENTER file://localhost///scratch/condor/dir_24031/atlas_HudmF2he/PanDA_Pilot-4419868006/log.18636890._001059.job.log.tgz.1?xrd.gsiusrpxy=/scratch/condor/dir_24031/job.9XONDm6yx7unnoBGSqYX2MjnABFKDmABFKDmSyhTDmEBFKDmqAGN3n.proxy&xrd.wantprot=gsi,unix => root://golias100.farm.particle.cz:1094///dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc15_13TeV/26/98/log.18636890._001059.job.log.tgz.1.rucio.upload?xrd.gsiusrpxy=/scratch/condor/dir_24031/job.9XONDm6yx7unnoBGSqYX2MjnABFKDmABFKDmSyhTDmEBFKDmqAGN3n.proxy&x 2019-07-17 15:09:17,811 | INFO | Dummy-2 | gfal2 | (unknown function) | Event triggered: BOTH xroot TRANSFER:TYPE streamed 2019-07-17 15:11:23,914 | INFO | Dummy-2 | gfal2 | (unknown function) | Event triggered: BOTH xroot TRANSFER:EXIT Job finished, [SUCCESS] but probably rucio tries to verify checksum (gfal-sum via python bindings) and it fails 2019-07-17 15:15:23,774 | INFO | copytool_out | pilot.copytool.rucio | copy_out | stderr = An unknown exception occurred. Details: Checksum not validated because DPM is unable to calculate checksum for 128TB file within timeout. Petr On 7/19/19 5:07 AM, Andrew Hanushevsky wrote:Hi Petr, Indeed, it looks like what was used to upload the files (xrdcp?) created a very large sparse file by writing with a very large offset. The clue here is that an anomaly occurred during the write and these two messages (lkely each corresponding to each file) tell us something....190717 17:10:39 332092 ofs_Posc: Creator changed fromatlasprd.2757:90@[2001:718:401:6e03::1:21] to atlasprd.2757:39@[2001:718:401:6e03::1:21] for /dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc15_13TeV/26/98/ log.18636890._001059.job.log.tgz.1.rucio.upload190717 17:29:26 14204 ofs_Posc: Creator changed fromatlasprd.2757:33@[2001:718:401:6e03::1:32] to atlasprd.2757:95@[2001:718:401:6e03::1:32] for /dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc16_5TeV/09/bc/ AOD.18595963._000786.pool.root.1.rucio.upload What the POSC system is saying is that in each case the original creator of the file lost contact with the server. It then reconnected and resumed writing with a successful close. POSC allows this to avoid network glitches from deleting a file because a network glitch will cause the client to reconnect and resume where it left off. This is only allowed when the resuming client comes from the same IP address, has the same process ID, and the same logical name. In this case it was "atlasprd.2757". I find that rather odd because it's next to impossible for two processes on two different machines to have the same process number (i.e. 2757). So, this is why I am wondering if this was really an xrdcp or some other program. We should look to see what these client were actually doing during this period as they clearly did not do the right thing when they reconnected. So, could you grep out all interactions of these two client from the log. Something like: grep "atlasprd.2757:" <logfile> | egrep '2001:718:401:6e03::1:21|2001:718:401:6e03::1:32' > <excerpt> and send the excerpt to me? Andy On Thu, 18 Jul 2019, Petr Vokac wrote:Hi, our DPM which is using native xrootd 4.9.1 yesterday created two different 128TB files on two different diskservers that were received as a job output from two different worker nodes. The size of original file was few megabytes and when I check beginning of stored files up to original size & checksum everything seems to be OK - except these are sparse files with size 128TB. Original transferred files from WN looked like: mc15_13TeV:log.18636890._001059.job.log.tgz.1 - original size 3101899, adler32 742e1336 mc16_5TeV:AOD.18595963._000786.pool.root.1 - original size 737474514, adler32 dc68cb21 but on our diskservers they were stored as [root@dpmpool22 ~]# ls -l /mnt/fs1/atlas/2019-07-17/log.18636890._001059.job.log.tgz.1.rucio.upload.209928.1563376157 -rw-rw---- 1 dpmmgr dpmmgr 140560257079236 Jul 17 17:11 /mnt/fs1/atlas/2019-07-17/log.18636890._001059.job.log.tgz.1.rucio.upload.209928.1563376157 [root@dpmpool22 ~]# du --block-size=1 /mnt/fs1/atlas/2019-07-17/log.18636890._001059.job.log.tgz.1.rucio.upload.209928.1563376157 3108864 /mnt/fs1/atlas/2019-07-17/log.18636890._001059.job.log.tgz.1.rucio.upload.209928.1563376157 [root@dpmpool24 ~]# ls -l /mnt/fs2/atlas/2019-07-17/AOD.18595963._000786.pool.root.1.rucio.upload.210480.1563377083 -rw-rw---- 1 dpmmgr dpmmgr 139734345056408 Jul 17 17:31 /mnt/fs2/atlas/2019-07-17/AOD.18595963._000786.pool.root.1.rucio.upload.210480.1563377083 [root@dpmpool24 tmp]# du --block-size=1 /mnt/fs2/atlas/2019-07-17/AOD.18595963._000786.pool.root.1.rucio.upload.210480.1563377083 737480704 /mnt/fs2/atlas/2019-07-17/AOD.18595963._000786.pool.root.1.rucio.upload.210480.1563377083 I was told that DPM is not really involved in transfering / storing files with xrootd protocol, so I guess something bad must happened inside XRootD libraries. Do you have any idea why these two transfers generated such extreme files? Unfortunately our xrootd logging is pretty low and I was able to find only info about file creation [root@dpmpool22 ~]# grep log.18636890._001059.job.log.tgz /var/log/xrootd/dpmdisk/xrootd.log 190717 17:10:39 332092 ofs_Posc: Creator changed fromatlasprd.2757:90@[2001:718:401:6e03::1:21] to atlasprd.2757:39@[2001:718:401:6e03::1:21] for /dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc15_13TeV/26/98/ log.18636890._001059.job.log.tgz.1.rucio.upload[root@dpmpool24 tmp]# grep AOD.18595963._000786.pool.root /var/log/xrootd/dpmdisk/xrootd.log 190717 17:29:26 14204 ofs_Posc: Creator changed fromatlasprd.2757:33@[2001:718:401:6e03::1:32] to atlasprd.2757:95@[2001:718:401:6e03::1:32] for /dpm/farm.particle.cz/home/atlas/atlasdatadisk/rucio/mc16_5TeV/09/bc/AOD.18595963. _000786.pool.root.1.rucio.uploadPetr ######################################################################## Use REPLY-ALL to reply to list To unsubscribe from the XROOTD-L list, click the following link: https://listserv.slac.stanford.edu/cgi-bin/wa?SUBED1=XROOTD-L&A=1######################################################################## Use REPLY-ALL to reply to list To unsubscribe from the XROOTD-L list, click the following link: https://listserv.slac.stanford.edu/cgi-bin/wa?SUBED1=XROOTD-L&A=1######################################################################## Use REPLY-ALL to reply to list To unsubscribe from the XROOTD-L list, click the following link: https://listserv.slac.stanford.edu/cgi-bin/wa?SUBED1=XROOTD-L&A=1------------------------------------------------------------------------ Use REPLY-ALL to reply to list To unsubscribe from the XROOTD-L list, click the following link: https://listserv.slac.stanford.edu/cgi-bin/wa?SUBED1=XROOTD-L&A=1------------------------------------------------------------------------ Use REPLY-ALL to reply to list To unsubscribe from the XROOTD-L list, click the following link: https://listserv.slac.stanford.edu/cgi-bin/wa?SUBED1=XROOTD-L&A=1######################################################################## Use REPLY-ALL to reply to list To unsubscribe from the XROOTD-L list, click the following link: https://listserv.slac.stanford.edu/cgi-bin/wa?SUBED1=XROOTD-L&A=1######################################################################## Use REPLY-ALL to reply to list To unsubscribe from the XROOTD-L list, click the following link: https://listserv.slac.stanford.edu/cgi-bin/wa?SUBED1=XROOTD-L&A=1
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