Sorry for the email, but going through the Debug output I came across the
following difference which I figure is relevant:
I am not sure what is causing it yet.
Bold points mark divergence in output that actually helps make sense a bit
of why the ssh goes defunct. More to look into of course...
######################################
### WITH --MODIFY-ENV PLUGIN #####
######################################
[45000] TRACE at pid_miscwrappers.cpp:109 in clone_start; REASON='Calling
user function'
virtualTid = 45020
[45000] TRACE at threadlist.cpp:237 in updateTid; REASON='starting thread'
th->tid = 118062
th->virtual_tid = 45020
[45000] TRACE at threadwrappers.cpp:67 in clone_start; REASON='Calling user
function'
dmtcp_gettid() = 45020
*[46000] TRACE at coordinatorapi.cpp:70 in dmtcp_CoordinatorAPI_EventHook;
REASON='exit() in progress, disconnecting from dmtcp coordinator'*
[46000] TRACE at threadlist.cpp:250 in killCkpthread; REASON='Kill
checkpinthread'
ckptThread->tid = 117995
[46000] TRACE at dmtcpworker.cpp:333 in cleanupWorker;
REASON='disconnecting from dmtcp coordinator'
[40000] TRACE at socketwrappers.cpp:59 in socket; REASON='socket created'
ret = 13
domain = 2
type = 1
protocol = 0
[40000] TRACE at socketconnection.cpp:196 in TcpConnection;
REASON='Creating TcpConnection.'
id() = 1c81169a0ee7cfa2-40000-57363f26(99543)
domain = 2
type = 1
protocol = 0
######################################
### WITHOUT --MODIFY-ENV PLUGIN ######
######################################
[45000] TRACE at pid_miscwrappers.cpp:109 in clone_start; REASON='Calling
user function'
virtualTid = 45020
[45000] TRACE at threadlist.cpp:237 in updateTid; REASON='starting thread'
th->tid = 117444
th->virtual_tid = 45020
[45000] TRACE at threadwrappers.cpp:67 in clone_start; REASON='Calling user
function'
dmtcp_gettid() = 45020
*[46000] TRACE at socketwrappers.cpp:152 in process_accept;
REASON='accepted incoming connection'*
* sockfd = 9*
* con->id() = 1c81169a0ee7cfa2-46000-57363ea3(99548)*
[45000] TRACE at socketwrappers.cpp:152 in process_accept; REASON='accepted
incoming connection'
sockfd = 19
con->id() = 1c81169a0ee7cfa2-45000-57363ea3(99540)
[45000] TRACE at pid_miscwrappers.cpp:149 in __clone; REASON='Calling
libc:__clone'
[45000] TRACE at pid_miscwrappers.cpp:158 in __clone; REASON='New thread
created'
tid = 117492
[45000] TRACE at pid_miscwrappers.cpp:109 in clone_start; REASON='Calling
user function'
virtualTid = 45022
[45000] TRACE at threadlist.cpp:237 in updateTid; REASON='starting thread'
th->tid = 117492
th->virtual_tid = 45022
On Fri, May 13, 2016 at 11:25 AM, William Fox <w...@lbl.gov> wrote:
> Sure no worries on the issue submission or format taken.
>
> The 2.5 branch as mentioned works in serial for modifyenv but not
> distributed. Thanks for the pointers and I'm looking forward to a modify
> env that is compatible with distributed mode. I'll let you know if I
> manage to find a fix myself. Thanks again.
> On May 13, 2016 11:21 AM, "Gene Cooperman" <g...@ccs.neu.edu> wrote:
>
> Hi William. So,
> git clone --branch=2.5 https://github.com/dmtcp/dmtcp.git
> will probably work for you. We'll set up a 2.5.0-rc2 for future users.
>
> For the additional note, below, do you mind if I copy your report
> from the latest e-mail into a github issue? By default, I'll give
> credit to you as "William Fox" (no e-mail address). But I can do that part
> however you wish.
>
> We're between spring and summer semester here, but we hope to look
> at this seriously in the summer.
>
> Thanks,
> - Gene
>
> On Thu, May 12, 2016 at 05:24:20PM -0700, William Fox wrote:
> > CentOS version :
> > LSB Version:
> >
> :base-4.0-amd64:base-4.0-noarch:core-4.0-amd64:core-4.0-noarch:graphics-4.0-amd64:graphics-4.0-noarch:printing-4.0-amd64:printing-4.0-noarch
> > Distributor ID: CentOS
> > Description: CentOS release 6.4 (Final)
> > Release: 6.4
> > Codename: Final
> >
> > also: All the above was correct, I discovered the missing warning.cpp in
> > the make files but was not sure how to fix it.
> >
> > An additional note, which may be a known compatibility error.
> >
> > with the following installed
> > git clone --branch=2.5 https://github.com/dmtcp/dmtcp.git
> > the expected behavior occurs for --ib in distributed mode and
> --modify-env
> > in serial but, using --ib and --modify-env or just --modify-env in a
> > distributed environment causes [dmtcp_ssh]<defunct> when workers are
> > spawned from the master through TCP ssh calls.
> >
> > Without --modify-env it performs correctly. Using --enable-debug on
> > compile gives:
> > [49000] TRACE at dmtcpworker.cpp:453 in waitForStage1Suspend;
> > REASON='running'
> > [49000] TRACE at dmtcpworker.cpp:412 in waitForCoordinatorMsg;
> > REASON='waiting for SUSPEND message'
> > [46000] TRACE at coordinatorapi.cpp:70 in dmtcp_CoordinatorAPI_EventHook;
> > REASON='exit() in progress, disconnecting from dmtcp coordinator'
> > [46000] TRACE at threadlist.cpp:250 in killCkpthread; REASON='Kill
> > checkpinthread'
> > ckptThread->tid = 112446
> > [46000] TRACE at dmtcpworker.cpp:333 in cleanupWorker;
> > REASON='disconnecting from dmtcp coordinator'
> > [47000] TRACE at coordinatorapi.cpp:70 in dmtcp_CoordinatorAPI_EventHook;
> > REASON='exit() in progress, disconnecting from dmtcp coordinator'
> > [47000] TRACE at threadlist.cpp:250 in killCkpthread; REASON='Kill
> > checkpinthread'
> > ckptThread->tid = 112449
> > [47000] TRACE at dmtcpworker.cpp:333 in cleanupWorker;
> > REASON='disconnecting from dmtcp coordinator'
> > [40000] TRACE at socketwrappers.cpp:59 in socket; REASON='socket created'
> > ret = 13
> > domain = 2
> > type = 1
> > protocol = 0
> > [40000] TRACE at socketconnection.cpp:196 in TcpConnection;
> > REASON='Creating TcpConnection.'
> > id() = 3d1ce25df201d031-40000-57351cc4(99546)
> > domain = 2
> > type = 1
> > protocol = 0
> > [40000] TRACE at socketwrappers.cpp:89 in connect; REASON='connected'
> > sockfd = 13
> > con->id() = 3d1ce25df201d031-40000-57351cc4(99546)
> > [45000] TRACE at socketwrappers.cpp:152 in process_accept;
> REASON='accepted
> > incoming connection'
> > sockfd = 19
> > con->id() = 3d1ce25df201d031-45000-57351d2e(99537)
> > [45000] TRACE at pid_miscwrappers.cpp:149 in __clone; REASON='Calling
> > libc:__clone'
> > [45000] TRACE at pid_miscwrappers.cpp:158 in __clone; REASON='New thread
> > created'
> > tid = 112538
> > [45000] TRACE at pid_miscwrappers.cpp:109 in clone_start; REASON='Calling
> > user function'
> > virtualTid = 45018
> > [45000] TRACE at threadlist.cpp:237 in updateTid; REASON='starting
> thread'
> > th->tid = 112538
> > th->virtual_tid = 45018
> > [45000] TRACE at threadwrappers.cpp:67 in clone_start; REASON='Calling
> user
> > function'
> > dmtcp_gettid() = 45018
> > [45000] TRACE at pid_miscwrappers.cpp:149 in __clone; REASON='Calling
> > libc:__clone'
> > [45000] TRACE at pid_miscwrappers.cpp:158 in __clone; REASON='New thread
> > created'
> > tid = 112539
> > [45000] TRACE at pid_miscwrappers.cpp:109 in clone_start; REASON='Calling
> > user function'
> > virtualTid = 45020
> > [45000] TRACE at threadlist.cpp:237 in updateTid; REASON='starting
> thread'
> > th->tid = 112539
> > th->virtual_tid = 45020
> > [45000] TRACE at threadwrappers.cpp:67 in clone_start; REASON='Calling
> user
> > function'
> > dmtcp_gettid() = 45020
> >
> >
> > On Thu, May 12, 2016 at 3:54 PM, Gene Cooperman <g...@ccs.neu.edu>
> wrote:
> >
> > > William,
> > > Could you try out the latest development branch:
> > > git clone --branch=2.5 https://github.com/dmtcp/dmtcp.git
> > > This will give you the commit 00f5f74 that Rohan refers to.
> > > Please let us know if this works for you.
> > >
> > > Kapil,
> > > I think the conclusion here is that it's time to release:
> > > dmtcp-2.5.0-rc2
> > > Could you do that when you have a chance?
> > >
> > > Thanks,
> > > - Gene
> > >
> > > On Thu, May 12, 2016 at 06:46:56PM -0400, Rohan Garg wrote:
> > > > Gene and William,
> > > >
> > > > I'm not sure if it's the same bug that we fixed in commit 00f5f74. If
> > > > it is then here's the story behind it:
> > > >
> > > > The bug was introduced in commit: 3a53d4f, where we added some
> warning
> > > > messages using a new `warning()` API in the modify-env plugin. The
> > > warning
> > > > API was defined in a new file `warning.cpp`, but we failed to add the
> > > > new file to our Makefile. This was later fixed in the commit: 00f5f74
> > > > around late Feb (see: https://github.com/dmtcp/dmtcp/commit/00f5f74
> ),
> > > > but it didn't make it to 2.5.0-rc1, which was release earlier in Feb.
> > > >
> > > > Thanks,
> > > > Rohan
> > >
> >
> >
> >
> > --
> > William Fox
> >
> > Lawrence Berkeley National Laboratory
> > Computational Research Division
>
>
--
William Fox
Lawrence Berkeley National Laboratory
Computational Research Division
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