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alan-turing-institute / data-safe-haven

https://data-safe-haven.readthedocs.io
BSD 3-Clause "New" or "Revised" License
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Get sbt to work offline #961

Closed jemrobinson closed 2 years ago

jemrobinson commented 3 years ago

:scroll: Description

The Raphtory project would like zsh and sbt added to the DSVM. Both zsh and sbt are installed and functional on the DSVM but sbt attempts to connect to the internet on startup

:strawberry: Desired behaviour

jemrobinson commented 3 years ago

From @richardclegg:

This set of commands runs raphtory when an internet connection is present. (But I guess cannot be tested without.)

sudo apt-get update
sudo apt -y install scala
echo "deb https://dl.bintray.com/sbt/debian /" | sudo tee -a /etc/apt/sources.list.d/sbt.list
curl -sL "https://keyserver.ubuntu.com/pks/lookup?op=get&search=0x2EE0EA64E40A89B84B2DF73499E82A75642AC823" | sudo apt-key add
sudo apt-get update
sudo apt-get -y install sbt
sudo apt-get -y install git
git clone https://github.com/Raphtory/Raphtory.git
cd Raphtory
git checkout citation
sbt run com.raphtory.test.allcommands.AllCommandsTest
jemrobinson commented 3 years ago

Tested on a recently-built compute VM image with internet access (see below). A couple of notes

Maybe @richardclegg has thoughts on how to get this to work inside an SRE?

Cloning the repository ```bash > git clone https://github.com/Raphtory/Raphtory.git Cloning into 'Raphtory'... remote: Enumerating objects: 750, done. remote: Counting objects: 100% (750/750), done. remote: Compressing objects: 100% (365/365), done. remote: Total 20996 (delta 360), reused 556 (delta 235), pack-reused 20246 Receiving objects: 100% (20996/20996), 32.58 MiB | 18.35 MiB/s, done. Resolving deltas: 100% (11390/11390), done. > cd Raphtory > git checkout citation error: pathspec 'citation' did not match any file(s) known to git. ```
Running sbt tests ```bash > sbt run com.raphtory.test.allcommands.AllCommandsTest copying runtime jar... [info] [launcher] getting org.scala-sbt sbt 1.3.8 (this may take some time)... downloading https://repo1.maven.org/maven2/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.jar ... downloading https://repo1.maven.org/maven2/org/scala-lang/scala-library/2.12.10/scala-library-2.12.10.jar ... downloading https://repo1.maven.org/maven2/org/scala-sbt/main_2.12/1.3.8/main_2.12-1.3.8.jar ... downloading https://repo1.maven.org/maven2/org/scala-sbt/io_2.12/1.3.3/io_2.12-1.3.3.jar ... :: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml :: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml :: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml :: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml [SUCCESSFUL ] org.scala-sbt#sbt;1.3.8!sbt.jar (67ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/logic_2.12/1.3.8/logic_2.12-1.3.8.jar ... 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[SUCCESSFUL ] org.scala-sbt#util-scripted_2.12;1.3.3!util-scripted_2.12.jar (10ms) [SUCCESSFUL ] com.github.cb372#scalacache-core_2.12;0.20.0!scalacache-core_2.12.jar (11ms) [SUCCESSFUL ] com.github.ben-manes.caffeine#caffeine;2.5.6!caffeine.jar (22ms) [SUCCESSFUL ] org.scala-sbt.ivy#ivy;2.3.0-sbt-88d6a93d15f9b029958c1c289a8859e8dfe31a19!ivy.jar (25ms) :: retrieving :: org.scala-sbt#boot-app confs: [default] 81 artifacts copied, 0 already retrieved [info] [launcher] getting Scala 2.12.10 (for sbt)... downloading https://repo1.maven.org/maven2/org/scala-lang/modules/scala-xml_2.12/1.0.6/scala-xml_2.12-1.0.6.jar ... downloading https://repo1.maven.org/maven2/org/fusesource/jansi/jansi/1.12/jansi-1.12.jar ... 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[info] Loading settings for project raphtory from build.sbt ... 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[info] Compiling 106 Scala sources to /root/Raphtory/target/scala-2.12/classes ... [info] Non-compiled module 'compiler-bridge_2.12' for Scala 2.12.4. Compiling... [info] Compilation completed in 8.883s. [warn] /root/Raphtory/src/main/scala/com/raphtory/core/actors/PartitionManager/Workers/IngestionWorker.scala:259:27: postfix operator nonEmpty should be enabled [warn] by making the implicit value scala.language.postfixOps visible. [warn] This can be achieved by adding the import clause 'import scala.language.postfixOps' [warn] or by setting the compiler option -language:postfixOps. [warn] See the Scaladoc for value scala.language.postfixOps for a discussion [warn] why the feature should be explicitly enabled. [warn] if(queuedMessageMap nonEmpty) { [warn] ^ [warn] /root/Raphtory/src/main/scala/com/raphtory/core/actors/PartitionManager/Workers/IngestionWorker.scala:287:27: postfix operator nonEmpty should be enabled [warn] by making the implicit value scala.language.postfixOps visible. [warn] while (messageQueue nonEmpty) [warn] ^ [warn] /root/Raphtory/src/main/scala/com/raphtory/core/actors/PartitionManager/Workers/IngestionWorker.scala:327:38: postfix operator seconds should be enabled [warn] by making the implicit value scala.language.postfixOps visible. [warn] scheduleTask(initialDelay = 10 seconds, interval = 5 second, receiver = self, message = Watermark) [warn] ^ [warn] /root/Raphtory/src/main/scala/com/raphtory/core/actors/PartitionManager/Workers/IngestionWorker.scala:327:60: postfix operator second should be enabled [warn] by making the implicit value scala.language.postfixOps visible. [warn] scheduleTask(initialDelay = 10 seconds, interval = 5 second, receiver = self, message = Watermark) [warn] ^ [warn] /root/Raphtory/src/main/scala/com/raphtory/core/actors/Router/RouterWorker.scala:71:32: abstract type pattern T is unchecked since it is eliminated by erasure [warn] case AllocateTuple(record: T) => //todo: wvv AllocateTuple should hold type of record instead of using Any [warn] ^ [warn] /root/Raphtory/src/main/scala/com/raphtory/dev/algorithms/MultiLayerLPAVW.scala:141:5: A try without a catch or finally is equivalent to putting its body in a block; no exceptions are handled. [warn] try { [warn] ^ [warn] /root/Raphtory/src/main/scala/com/raphtory/dev/lotr/LOTRSpout.scala:19:18: postfix operator isEmpty should be enabled [warn] by making the implicit value scala.language.postfixOps visible. [warn] if(fileQueue isEmpty){ [warn] ^ [warn] /root/Raphtory/src/main/scala/com/raphtory/spouts/KafkaSpout.scala:28:21: postfix operator isEmpty should be enabled [warn] by making the implicit value scala.language.postfixOps visible. [warn] if(messageQueue isEmpty) { [warn] ^ [warn] /root/Raphtory/src/main/scala/com/raphtory/spouts/KafkaSpout.scala:32:23: postfix operator isEmpty should be enabled [warn] by making the implicit value scala.language.postfixOps visible. [warn] if(messageQueue isEmpty) //still empty [warn] ^ [warn] /root/Raphtory/src/main/scala/com/raphtory/algorithms/MotifCounting.scala:132:93: match may not be exhaustive. [warn] It would fail on the following input: (_, false) [warn] def getTimes(edge: EdgeVisitor, time: Long): Iterable[Long] = edge.getHistory().filter { case (t, true) => t >= time & t < time + delta }.keys [warn] ^ [warn] /root/Raphtory/src/main/scala/com/raphtory/core/model/analysis/entityVisitors/EdgeVisitor.scala:30:26: match may not be exhaustive. [warn] It would fail on the following input: Some((x: com.raphtory.core.model.graphentities.Property forSome x not in (com.raphtory.core.model.graphentities.ImmutableProperty, com.raphtory.core.model.graphentities.MutableProperty))) [warn] edge.properties.get(key) match { [warn] ^ [warn] /root/Raphtory/src/main/scala/com/raphtory/core/model/analysis/entityVisitors/EdgeVisitor.scala:36:26: match may not be exhaustive. [warn] It would fail on the following input: Some((x: com.raphtory.core.model.graphentities.Property forSome x not in (com.raphtory.core.model.graphentities.ImmutableProperty, com.raphtory.core.model.graphentities.MutableProperty))) [warn] edge.properties.get(key) match { [warn] ^ [warn] /root/Raphtory/src/main/scala/com/raphtory/RaphtoryComponent.scala:44:9: object JavaConversions in package collection is deprecated (since 2.12.0): use JavaConverters [warn] JavaConversions.asJavaIterable( [warn] ^ [warn] /root/Raphtory/src/main/scala/com/raphtory/RaphtoryServer.scala:119:11: object JavaConversions in package collection is deprecated (since 2.12.0): use JavaConverters [warn] JavaConversions.asJavaIterable( [warn] ^ [warn] /root/Raphtory/src/main/scala/com/raphtory/RaphtoryServer.scala:147:31: object JavaConversions in package collection is deprecated (since 2.12.0): use JavaConverters [warn] val seeds = config.getList("akka.cluster.seed-nodes").toList [warn] ^ [warn] /root/Raphtory/src/main/scala/com/raphtory/RaphtoryServer.scala:148:31: object JavaConversions in package collection is deprecated (since 2.12.0): use JavaConverters [warn] val roles = config.getList("akka.cluster.roles").toList [warn] ^ [warn] /root/Raphtory/src/main/scala/com/raphtory/dev/allcommands/ResultsCompare.scala:28:82: value DEFAULT_CODEC_REGISTRY in package codecs is deprecated (since 2.9.0): Please use org.mongodb.scala.MongoClient.DEFAULT_CODEC_REGISTRY instead [warn] val codecRegistry = fromRegistries(fromProviders(classOf[StateCheckResult]), DEFAULT_CODEC_REGISTRY ) [warn] ^ [warn] /root/Raphtory/src/main/scala/com/raphtory/dev/allcommands/ResultsCompare.scala:58:92: value DEFAULT_CODEC_REGISTRY in package codecs is deprecated (since 2.9.0): Please use org.mongodb.scala.MongoClient.DEFAULT_CODEC_REGISTRY instead [warn] val codecRegistry = fromRegistries(fromProviders(classOf[ConnectedComponentsResults]), DEFAULT_CODEC_REGISTRY ) [warn] ^ [warn] 18 warnings found [warn] Multiple main classes detected. Run 'show discoveredMainClasses' to see the list Multiple main classes detected, select one to run: [1] com.raphtory.RaphtoryServer [2] com.raphtory.dev.allcommands.AllCommandTest [3] com.raphtory.dev.allcommands.ResultsCompare [4] com.raphtory.dev.gab.GabDeployments Enter number: Invalid number: java.lang.NumberFormatException: For input string: "" [error] java.lang.RuntimeException: No main class detected. [error] at scala.sys.package$.error(package.scala:30) [error] stack trace is suppressed; run last Compile / bgRun for the full output [error] (Compile / bgRun) No main class detected. [error] Total time: 30 s, completed 19 Mar 2021, 12:51:10 ```
richardclegg commented 3 years ago

@miratepuffin can you comment on this?

miratepuffin commented 3 years ago

Hi @jemrobinson,

I apologise about the branch, we have just published a new version and merged everything from citation and removed. Either master or dev would be great.

For sbt, the packages downloaded from maven are the java packages required to run Raphtory. Once it has been run once these would be fully downloaded and this wouldn't need to run again. Everything on Maven is scrupulously investigated before it is added (trust me from someone that is trying to get there jars up there :D ) and is the main repo for java projects. Would this be ok to run first on your side for the final env? If not happy to hop on call or discuss this further to find a solution.

jemrobinson commented 3 years ago

Is there a command we could run at deployment time that would download all the dependencies?

richardclegg commented 3 years ago

I believe this is what sbt run com.raphtory.test.allcommands.AllCommandsTest does

miratepuffin commented 3 years ago

The alternative to this would be sbt clean assembly, which will build the fat jar with all packages. But either works :)

richardclegg commented 3 years ago

@miratepuffin I think you are saying that if they deploy the safe haven just with these packages then we could make it work at our end?

miratepuffin commented 3 years ago

What I am saying is you need to run sbt clean assembly to pull the required jars from maven so that Raphtory will run. It will only need to be run once as those packages will then be available in the /target folder. After that no more internet connection is required.

miratepuffin commented 3 years ago

i.e. after running the following you can disconnect the internet and we will be ready to go


sudo apt -y install scala
echo "deb https://dl.bintray.com/sbt/debian /" | sudo tee -a /etc/apt/sources.list.d/sbt.list
curl -sL "https://keyserver.ubuntu.com/pks/lookup?op=get&search=0x2EE0EA64E40A89B84B2DF73499E82A75642AC823" | sudo apt-key add
sudo apt-get update
sudo apt-get -y install sbt
sudo apt-get -y install git
git clone https://github.com/Raphtory/Raphtory.git
cd Raphtory
sbt clean assembly
richardclegg commented 3 years ago

Do you need any more information here? I think this should be all you need to do to get it working?

richardclegg commented 3 years ago

Sorry that last was for @jemrobinson

jemrobinson commented 3 years ago

Build time (internet access allowed)

Note that the following commands are run as root since there are no other users at this point

root> cd /scratch
root> git clone https://github.com/Raphtory/Raphtory.git
root> cd Raphtory && sbt clean assembly
root> chmod -R go=u /scratch/Raphtory

This seems to complete successfully without any obvious errors.

Run time (no internet access)

After deploying the VM I then run the following as a non-privileged user:

> cd /scratch/Raphtory
> sbt run com.raphtory.test.allcommands.AllCommandsTest

This then crashes with the following error:

Error log ``` [info] [launcher] getting org.scala-sbt sbt 1.3.8 (this may take some time)... You probably access the destination server through a proxy server that is not well configured. You probably access the destination server through a proxy server that is not well configured. You probably access the destination server through a proxy server that is not well configured. You probably access the destination server through a proxy server that is not well configured. You probably access the destination server through a proxy server that is not well configured. You probably access the destination server through a proxy server that is not well configured. You probably access the destination server through a proxy server that is not well configured. You probably access the destination server through a proxy server that is not well configured. :: problems summary :: :::: WARNINGS Host repo1.maven.org not found. url=https://repo1.maven.org/maven2/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.pom Host repo1.maven.org not found. url=https://repo1.maven.org/maven2/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.jar Host repo.scala-sbt.org not found. url=https://repo.scala-sbt.org/scalasbt/maven-releases/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.pom Host repo.scala-sbt.org not found. url=https://repo.scala-sbt.org/scalasbt/maven-releases/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.jar Host repo.scala-sbt.org not found. url=https://repo.scala-sbt.org/scalasbt/maven-snapshots/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.pom Host repo.scala-sbt.org not found. url=https://repo.scala-sbt.org/scalasbt/maven-snapshots/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.jar Host repo.typesafe.com not found. url=https://repo.typesafe.com/typesafe/ivy-releases/org.scala-sbt/sbt/1.3.8/ivys/ivy.xml Host repo.scala-sbt.org not found. url=https://repo.scala-sbt.org/scalasbt/ivy-snapshots/org.scala-sbt/sbt/1.3.8/ivys/ivy.xml module not found: org.scala-sbt#sbt;1.3.8 ==== local: tried /home/james.robinson/.ivy2/local/org.scala-sbt/sbt/1.3.8/ivys/ivy.xml -- artifact org.scala-sbt#sbt;1.3.8!sbt.jar: /home/james.robinson/.ivy2/local/org.scala-sbt/sbt/1.3.8/jars/sbt.jar ==== local-preloaded-ivy: tried file:////home/james.robinson/.sbt/preloaded/org.scala-sbt/sbt/1.3.8/ivys/ivy.xml ==== local-preloaded: tried file:////home/james.robinson/.sbt/preloaded/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.pom -- artifact org.scala-sbt#sbt;1.3.8!sbt.jar: file:////home/james.robinson/.sbt/preloaded/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.jar ==== Maven Central: tried https://repo1.maven.org/maven2/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.pom -- artifact org.scala-sbt#sbt;1.3.8!sbt.jar: https://repo1.maven.org/maven2/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.jar ==== sbt-maven-releases: tried https://repo.scala-sbt.org/scalasbt/maven-releases/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.pom -- artifact org.scala-sbt#sbt;1.3.8!sbt.jar: https://repo.scala-sbt.org/scalasbt/maven-releases/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.jar ==== sbt-maven-snapshots: tried https://repo.scala-sbt.org/scalasbt/maven-snapshots/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.pom -- artifact org.scala-sbt#sbt;1.3.8!sbt.jar: https://repo.scala-sbt.org/scalasbt/maven-snapshots/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.jar ==== typesafe-ivy-releases: tried https://repo.typesafe.com/typesafe/ivy-releases/org.scala-sbt/sbt/1.3.8/ivys/ivy.xml ==== sbt-ivy-snapshots: tried https://repo.scala-sbt.org/scalasbt/ivy-snapshots/org.scala-sbt/sbt/1.3.8/ivys/ivy.xml :::::::::::::::::::::::::::::::::::::::::::::: :: UNRESOLVED DEPENDENCIES :: :::::::::::::::::::::::::::::::::::::::::::::: :: org.scala-sbt#sbt;1.3.8: not found :::::::::::::::::::::::::::::::::::::::::::::: :: USE VERBOSE OR DEBUG MESSAGE LEVEL FOR MORE DETAILS [error] [launcher] unresolved dependency: org.scala-sbt#sbt;1.3.8: not found [error] [launcher] error during sbt launcher: error retrieving required libraries (see /home/james.robinson/.sbt/boot/update.log for complete log) [error] [launcher] could not retrieve sbt 1.3.8 ```

Any ideas what else to try @miratepuffin ?

richardclegg commented 3 years ago

@miratepuffin Looks like those repos do not exist? What's happening here?

felixcdr commented 3 years ago

From the error it seems the machine at build time has no access to https://repo1.maven.org where the dependencies are hosted. @jemrobinson is this step being run already inside the safe haven? We were intending for this to be possible when the image is created, but there would be no Internet required after this.

Can you confirm that at no point the machine will be able to connect to Maven servers? If that is impossible the alternative is we copy these same jar packages to the git repo, and configure sbt so that it finds these files. This is a bit of a hack, but certainly doable.

jemrobinson commented 3 years ago

Sorry, I wasn't clear earlier @felixcdr. I'll update my post above. Essentially, there is internet at build time, but even after running sbt clean assembly at build time, the package still tries to connect to Maven at run time. Is there a way to force it not to attempt this connection?

felixcdr commented 3 years ago

I think I have figured out the issue @jemrobinson . I tried on a local Docker container and sbt does not require Internet when the dependencies are there, although there is a specific flag for running it in offline mode that we can apply (sbt "set offline := true" run. The culprit if I understand correctly your logs is that these are two different machines / user spaces, and the scratch folder is where all the information is being copied from one to another. In the first machine, all dependencies are downloaded to the ivy2 cache, which by default is located in ~/.ivy2/cache . But when running the code in the safe environment, I suspect this folder does not exist.

The solution I think would be to copy all the downloaded dependencies to the scratch folder space, and specify the ivy location when testing sbt:

AT COMPILE TIME

root> cd /scratch
root> git clone https://github.com/Raphtory/Raphtory.git
root> cd Raphtory && sbt clean assembly
root> mkdir ivy2
root> cp -R ~/.ivy2/cache /scratch/Raphtory/ivy2
root> chmod -R go=u /scratch/Raphtory

AT TESTING TIME

cd /scratch/Raphtory
sbt -Dsbt.ivy.home=/scratch/Raphtory/ivy2 run com.raphtory.test.allcommands.AllCommandsTest

My commands might be a bit off, but hopefully this works.

jemrobinson commented 3 years ago

OK, this gets a bit further now but still crashes a bit later on. I'm getting the following runtime output:

> sbt -Dsbt.ivy.home=/opt/sbt/ivy run com.raphtory.test.allcommands.AllCommandsTest
copying runtime jar...
[info] [launcher] getting org.scala-sbt sbt 1.3.8. (this may take some time)
:: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml
:: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml
:: retrieving :: org.scala-sbt#boot-app
     confs: [default]
     81 artifacts copied, 0 already retrieved
[info] [launcher] getting Scala 2.12.10 (for sbt)...
:: retrieving :: org.scala-sbt#boot-scala
     confs: [default]
     6 artifacts copied, 0 already retrieved

[info] Loading settings for project raphtory-build from plugins.sbt ...
[info] Loading project definition from /scratch/Raphtory/project
[info] Updating
[info] Resolved  dependencies
[warn]
[warn]  Note: Some unresolved dependencies have extra attributes. Check that these dependencies exist with the requested attributes.
[warn]          org.scalameta:sbt-scalafmt:2.3.2 (sbtVersion=1.0, scalaVersion=2.12)
[warn]          com.lightbend.sbt:sbt-javaagent:0.1.5 (sbtVersion=1.0, scalaVersion=2.12)
[warn]          com.eed3si9n:sbt-assembly:0.14.9 (sbtVersion=1.0, scalaVersion=2.12)
[warn]          com.typesafe.sbt:sbt-native-packager:1.3.1 (sbtVersion=1.0, scalaVersion=2.12)
[warn]
[warn]  Note: Unresolved dependencies path:
[error] sbt.librarymanagement.ResolveException: Error downloading org.scalameta:sbt-scalafmt;sbtVersion=1.0;scalaVersion=2.12:2.3.2
[error]   Not found
[error]   Not found
[error]   download error: Caught java.net.UnknownHostException: repo1.maven.org (repo1.maven.org) while downloading https://repo1.maven.org/maven2/org/scalameta/sbt-scalafmt_2.12_1.0/2.3.2/sbt-scalafmt-2.3.2.pom

... so it looks like some packages have been pre-downloaded but others haven't. Would running run com.raphtory.test.allcommands.AllCommandsTest at build time help with this @felixcdr @miratepuffin ?

felixcdr commented 3 years ago

No, that's not expected :( These lines show that sbt has managed to copy the base executable files from the ivy2 folder. It has also found the project-specific configuration, as it is getting the version of sbt specified in build.properties.

Can you run the same command with the -v flag to see if debug gives some more info?

For reference this is what I see on a container with no Internet, having deleted ~/.sbt and ~/.ivy2. It shows the same output, and the goes to loading settings for project...

[info] [launcher] getting org.scala-sbt sbt 1.3.8  (this may take some time)...
:: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml
:: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml
:: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml
:: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml
:: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml
:: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml
:: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml
:: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml
:: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml
:: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml
:: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml
:: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml
:: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml
:: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml
:: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml
:: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml
:: retrieving :: org.scala-sbt#boot-app
        confs: [default]
        81 artifacts copied, 0 already retrieved
[info] [launcher] getting Scala 2.12.10 (for sbt)...
:: retrieving :: org.scala-sbt#boot-scala
        confs: [default]
        6 artifacts copied, 0 already retrieved
[info] Loading settings for project raphtory-build from plugins.sbt ...
richardclegg commented 3 years ago

So I think @jemrobinson that the issue is files from the repositories built in local directories by our install are not getting copied to the safe haven environment. Felix's idea of adding -v to the sbt command seems the best way forward to collect more info.

jemrobinson commented 3 years ago

Sorry, didn't see this reply (thanks for tagging me @richardclegg - that notifies me that there's been activity on the thread). I'll take a look later this week.

richardclegg commented 3 years ago

@jemrobinson Suspected that might be the case. I imagine you get a swarm of such things to deal with.

richardclegg commented 3 years ago

@jemrobinson Little nudge here. It would be great to get this going.

jemrobinson commented 3 years ago

I'm looking at this issue today/tomorrow (sorry for the delay!).

richardclegg commented 3 years ago

@jemrobinson Let me know if you need more info. Keen to resolve this.

jemrobinson commented 3 years ago
AT COMPILE TIME ``` root> RAPHTORY_HOME=/scratch/Raphtory root> SBT_IVY_HOME=/opt/sbt/ivy root> git clone https://github.com/Raphtory/Raphtory.git $RAPHTORY_HOME Cloning into '/scratch/Raphtory'... root> cd $RAPHTORY_HOME root> mkdir -p $SBT_IVY_HOME root> sbt -v -Dsbt.ivy.home=$SBT_IVY_HOME clean assembly [sbt_options] declare -a sbt_options=() [process_args] java_version = '11' [copyRt] java9_rt = '/root/.sbt/0.13/java9-rt-ext-ubuntu_11_0_10/rt.jar' copying runtime jar... # Executing command line: java -Xms512M -Xmx4096M -Xss2M -XX:MaxMetaspaceSize=1024M -Dsbt.ivy.home=/opt/sbt/ivy -Dscala.ext.dirs=/root/.sbt/0.13/java9-rt-ext-ubuntu_11_0_10 -jar /usr/share/sbt/bin/sbt-launch.jar clean assembly [info] [launcher] getting org.scala-sbt sbt 1.3.8 (this may take some time)... downloading https://repo1.maven.org/maven2/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.jar ... downloading https://repo1.maven.org/maven2/org/scala-lang/scala-library/2.12.10/scala-library-2.12.10.jar ... :: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml :: loading settings :: url = jar:file:/usr/share/sbt/bin/sbt-launch.jar!/org/apache/ivy/core/settings/ivysettings.xml [SUCCESSFUL ] org.scala-sbt#sbt;1.3.8!sbt.jar (96ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/main_2.12/1.3.8/main_2.12-1.3.8.jar ... [SUCCESSFUL ] org.scala-sbt#main_2.12;1.3.8!main_2.12.jar (155ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/io_2.12/1.3.3/io_2.12-1.3.3.jar ... [SUCCESSFUL ] org.scala-sbt#io_2.12;1.3.3!io_2.12.jar (45ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/logic_2.12/1.3.8/logic_2.12-1.3.8.jar ... [SUCCESSFUL ] org.scala-sbt#logic_2.12;1.3.8!logic_2.12.jar (48ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/actions_2.12/1.3.8/actions_2.12-1.3.8.jar ... [SUCCESSFUL ] org.scala-sbt#actions_2.12;1.3.8!actions_2.12.jar (20ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/main-settings_2.12/1.3.8/main-settings_2.12-1.3.8.jar ... [SUCCESSFUL ] org.scala-lang#scala-library;2.12.10!scala-library.jar (400ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/run_2.12/1.3.8/run_2.12-1.3.8.jar ... [SUCCESSFUL ] org.scala-sbt#main-settings_2.12;1.3.8!main-settings_2.12.jar (97ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/command_2.12/1.3.8/command_2.12-1.3.8.jar ... [SUCCESSFUL ] org.scala-sbt#run_2.12;1.3.8!run_2.12.jar (80ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/collections_2.12/1.3.8/collections_2.12-1.3.8.jar ... [SUCCESSFUL ] org.scala-sbt#command_2.12;1.3.8!command_2.12.jar (66ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/scripted-sbt-redux_2.12/1.3.8/scripted-sbt-redux_2.12-1.3.8.jar ... [SUCCESSFUL ] org.scala-sbt#collections_2.12;1.3.8!collections_2.12.jar (35ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/scripted-plugin_2.12/1.3.8/scripted-plugin_2.12-1.3.8.jar ... [SUCCESSFUL ] org.scala-sbt#scripted-sbt-redux_2.12;1.3.8!scripted-sbt-redux_2.12.jar (32ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/zinc-lm-integration_2.12/1.3.8/zinc-lm-integration_2.12-1.3.8.jar ... [SUCCESSFUL ] org.scala-sbt#scripted-plugin_2.12;1.3.8!scripted-plugin_2.12.jar (16ms) downloading https://repo1.maven.org/maven2/org/scala-lang/modules/scala-xml_2.12/1.2.0/scala-xml_2.12-1.2.0.jar ... [SUCCESSFUL ] org.scala-sbt#zinc-lm-integration_2.12;1.3.8!zinc-lm-integration_2.12.jar (18ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/launcher-interface/1.1.3/launcher-interface-1.1.3.jar ... [SUCCESSFUL ] org.scala-sbt#launcher-interface;1.1.3!launcher-interface.jar (13ms) downloading https://repo1.maven.org/maven2/org/apache/logging/log4j/log4j-api/2.11.2/log4j-api-2.11.2.jar ... [SUCCESSFUL ] org.scala-lang.modules#scala-xml_2.12;1.2.0!scala-xml_2.12.jar(bundle) (46ms) downloading https://repo1.maven.org/maven2/org/apache/logging/log4j/log4j-core/2.11.2/log4j-core-2.11.2.jar ... [SUCCESSFUL ] org.apache.logging.log4j#log4j-api;2.11.2!log4j-api.jar (29ms) downloading https://repo1.maven.org/maven2/org/apache/logging/log4j/log4j-slf4j-impl/2.11.2/log4j-slf4j-impl-2.11.2.jar ... [SUCCESSFUL ] org.apache.logging.log4j#log4j-slf4j-impl;2.11.2!log4j-slf4j-impl.jar (18ms) downloading https://repo1.maven.org/maven2/com/github/cb372/scalacache-caffeine_2.12/0.20.0/scalacache-caffeine_2.12-0.20.0.jar ... [SUCCESSFUL ] com.github.cb372#scalacache-caffeine_2.12;0.20.0!scalacache-caffeine_2.12.jar (40ms) downloading https://repo1.maven.org/maven2/io/get-coursier/lm-coursier-shaded_2.12/2.0.0-RC5-3/lm-coursier-shaded_2.12-2.0.0-RC5-3.jar ... [SUCCESSFUL ] org.apache.logging.log4j#log4j-core;2.11.2!log4j-core.jar (172ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/util-logging_2.12/1.3.3/util-logging_2.12-1.3.3.jar ... [SUCCESSFUL ] org.scala-sbt#util-logging_2.12;1.3.3!util-logging_2.12.jar (60ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/librarymanagement-core_2.12/1.3.1/librarymanagement-core_2.12-1.3.1.jar ... [SUCCESSFUL ] org.scala-sbt#librarymanagement-core_2.12;1.3.1!librarymanagement-core_2.12.jar (64ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/librarymanagement-ivy_2.12/1.3.1/librarymanagement-ivy_2.12-1.3.1.jar ... [SUCCESSFUL ] org.scala-sbt#librarymanagement-ivy_2.12;1.3.1!librarymanagement-ivy_2.12.jar (55ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/compiler-interface/1.3.4/compiler-interface-1.3.4.jar ... [SUCCESSFUL ] org.scala-sbt#compiler-interface;1.3.4!compiler-interface.jar (19ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/zinc-compile_2.12/1.3.4/zinc-compile_2.12-1.3.4.jar ... [SUCCESSFUL ] org.scala-sbt#zinc-compile_2.12;1.3.4!zinc-compile_2.12.jar (15ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/util-relation_2.12/1.3.3/util-relation_2.12-1.3.3.jar ... [SUCCESSFUL ] org.scala-sbt#util-relation_2.12;1.3.3!util-relation_2.12.jar (15ms) downloading https://repo1.maven.org/maven2/com/eed3si9n/sjson-new-scalajson_2.12/0.8.2/sjson-new-scalajson_2.12-0.8.2.jar ... [SUCCESSFUL ] com.eed3si9n#sjson-new-scalajson_2.12;0.8.2!sjson-new-scalajson_2.12.jar (76ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/util-position_2.12/1.3.3/util-position_2.12-1.3.3.jar ... [SUCCESSFUL ] org.scala-sbt#util-position_2.12;1.3.3!util-position_2.12.jar (43ms) downloading https://repo1.maven.org/maven2/com/eed3si9n/shaded-scalajson_2.12/1.0.0-M4/shaded-scalajson_2.12-1.0.0-M4.jar ... [SUCCESSFUL ] com.eed3si9n#shaded-scalajson_2.12;1.0.0-M4!shaded-scalajson_2.12.jar (19ms) downloading https://repo1.maven.org/maven2/org/spire-math/jawn-parser_2.12/0.10.4/jawn-parser_2.12-0.10.4.jar ... [SUCCESSFUL ] org.spire-math#jawn-parser_2.12;0.10.4!jawn-parser_2.12.jar (30ms) downloading https://repo1.maven.org/maven2/org/scala-lang/scala-reflect/2.12.10/scala-reflect-2.12.10.jar ... [SUCCESSFUL ] io.get-coursier#lm-coursier-shaded_2.12;2.0.0-RC5-3!lm-coursier-shaded_2.12.jar (519ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/completion_2.12/1.3.8/completion_2.12-1.3.8.jar ... [SUCCESSFUL ] org.scala-sbt#completion_2.12;1.3.8!completion_2.12.jar (54ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/task-system_2.12/1.3.8/task-system_2.12-1.3.8.jar ... [SUCCESSFUL ] org.scala-sbt#task-system_2.12;1.3.8!task-system_2.12.jar (32ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/tasks_2.12/1.3.8/tasks_2.12-1.3.8.jar ... [SUCCESSFUL ] org.scala-sbt#tasks_2.12;1.3.8!tasks_2.12.jar (29ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/testing_2.12/1.3.8/testing_2.12-1.3.8.jar ... [SUCCESSFUL ] org.scala-sbt#testing_2.12;1.3.8!testing_2.12.jar (29ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/util-tracking_2.12/1.3.3/util-tracking_2.12-1.3.3.jar ... [SUCCESSFUL ] org.scala-sbt#util-tracking_2.12;1.3.3!util-tracking_2.12.jar (21ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/zinc-classpath_2.12/1.3.4/zinc-classpath_2.12-1.3.4.jar ... [SUCCESSFUL ] org.scala-lang#scala-reflect;2.12.10!scala-reflect.jar (230ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/zinc-apiinfo_2.12/1.3.4/zinc-apiinfo_2.12-1.3.4.jar ... [SUCCESSFUL ] org.scala-sbt#zinc-classpath_2.12;1.3.4!zinc-classpath_2.12.jar (43ms) downloading https://repo1.maven.org/maven2/org/scala-sbt/zinc_2.12/1.3.4/zinc_2.12-1.3.4.jar ... 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[SUCCESSFUL ] com.github.ben-manes.caffeine#caffeine;2.5.6!caffeine.jar (75ms) [SUCCESSFUL ] org.scala-sbt.ivy#ivy;2.3.0-sbt-88d6a93d15f9b029958c1c289a8859e8dfe31a19!ivy.jar (90ms) :: retrieving :: org.scala-sbt#boot-app confs: [default] 81 artifacts copied, 0 already retrieved [info] [launcher] getting Scala 2.12.10 (for sbt)... downloading https://repo1.maven.org/maven2/org/scala-lang/modules/scala-xml_2.12/1.0.6/scala-xml_2.12-1.0.6.jar ... downloading https://repo1.maven.org/maven2/org/fusesource/jansi/jansi/1.12/jansi-1.12.jar ... [SUCCESSFUL ] org.fusesource.jansi#jansi;1.12!jansi.jar (32ms) [SUCCESSFUL ] org.scala-lang.modules#scala-xml_2.12;1.0.6!scala-xml_2.12.jar(bundle) (60ms) :: retrieving :: org.scala-sbt#boot-scala confs: [default] 6 artifacts copied, 0 already retrieved [info] Loading settings for project raphtory-build from plugins.sbt ... [info] Loading project definition from /scratch/Raphtory/project [warn] There may be incompatibilities among your library dependencies; run 'evicted' to see detailed eviction warnings. [info] Loading settings for project raphtory from build.sbt ... [info] Set current project to raphtory (in build file:/scratch/Raphtory/) [success] Total time: 0 s, completed 30 Apr 2021, 12:46:29 [warn] There may be incompatibilities among your library dependencies; run 'evicted' to see detailed eviction warnings. [info] Compiling 106 Scala sources to /scratch/Raphtory/target/scala-2.12/classes ... [info] Non-compiled module 'compiler-bridge_2.12' for Scala 2.12.4. Compiling... [info] Compilation completed in 22.433s. [warn] /scratch/Raphtory/src/main/scala/com/raphtory/core/actors/PartitionManager/Workers/IngestionWorker.scala:259:27: postfix operator nonEmpty should be enabled [warn] by making the implicit value scala.language.postfixOps visible. [warn] This can be achieved by adding the import clause 'import scala.language.postfixOps' [warn] or by setting the compiler option -language:postfixOps. [warn] See the Scaladoc for value scala.language.postfixOps for a discussion [warn] why the feature should be explicitly enabled. [warn] if(queuedMessageMap nonEmpty) { [warn] ^ [warn] /scratch/Raphtory/src/main/scala/com/raphtory/core/actors/PartitionManager/Workers/IngestionWorker.scala:287:27: postfix operator nonEmpty should be enabled [warn] by making the implicit value scala.language.postfixOps visible. [warn] while (messageQueue nonEmpty) [warn] ^ [warn] /scratch/Raphtory/src/main/scala/com/raphtory/core/actors/PartitionManager/Workers/IngestionWorker.scala:327:38: postfix operator seconds should be enabled [warn] by making the implicit value scala.language.postfixOps visible. [warn] scheduleTask(initialDelay = 10 seconds, interval = 5 second, receiver = self, message = Watermark) [warn] ^ [warn] /scratch/Raphtory/src/main/scala/com/raphtory/core/actors/PartitionManager/Workers/IngestionWorker.scala:327:60: postfix operator second should be enabled [warn] by making the implicit value scala.language.postfixOps visible. [warn] scheduleTask(initialDelay = 10 seconds, interval = 5 second, receiver = self, message = Watermark) [warn] ^ [warn] /scratch/Raphtory/src/main/scala/com/raphtory/core/actors/Router/RouterWorker.scala:71:32: abstract type pattern T is unchecked since it is eliminated by erasure [warn] case AllocateTuple(record: T) => //todo: wvv AllocateTuple should hold type of record instead of using Any [warn] ^ [warn] /scratch/Raphtory/src/main/scala/com/raphtory/dev/algorithms/MultiLayerLPAVW.scala:141:5: A try without a catch or finally is equivalent to putting its body in a block; no exceptions are handled. [warn] try { [warn] ^ [warn] /scratch/Raphtory/src/main/scala/com/raphtory/dev/lotr/LOTRSpout.scala:19:18: postfix operator isEmpty should be enabled [warn] by making the implicit value scala.language.postfixOps visible. [warn] if(fileQueue isEmpty){ [warn] ^ [warn] /scratch/Raphtory/src/main/scala/com/raphtory/spouts/KafkaSpout.scala:28:21: postfix operator isEmpty should be enabled [warn] by making the implicit value scala.language.postfixOps visible. [warn] if(messageQueue isEmpty) { [warn] ^ [warn] /scratch/Raphtory/src/main/scala/com/raphtory/spouts/KafkaSpout.scala:32:23: postfix operator isEmpty should be enabled [warn] by making the implicit value scala.language.postfixOps visible. [warn] if(messageQueue isEmpty) //still empty [warn] ^ [warn] /scratch/Raphtory/src/main/scala/com/raphtory/algorithms/MotifCounting.scala:132:93: match may not be exhaustive. [warn] It would fail on the following input: (_, false) [warn] def getTimes(edge: EdgeVisitor, time: Long): Iterable[Long] = edge.getHistory().filter { case (t, true) => t >= time & t < time + delta }.keys [warn] ^ [warn] /scratch/Raphtory/src/main/scala/com/raphtory/core/model/analysis/entityVisitors/EdgeVisitor.scala:30:26: match may not be exhaustive. [warn] It would fail on the following input: Some((x: com.raphtory.core.model.graphentities.Property forSome x not in (com.raphtory.core.model.graphentities.ImmutableProperty, com.raphtory.core.model.graphentities.MutableProperty))) [warn] edge.properties.get(key) match { [warn] ^ [warn] /scratch/Raphtory/src/main/scala/com/raphtory/core/model/analysis/entityVisitors/EdgeVisitor.scala:36:26: match may not be exhaustive. [warn] It would fail on the following input: Some((x: com.raphtory.core.model.graphentities.Property forSome x not in (com.raphtory.core.model.graphentities.ImmutableProperty, com.raphtory.core.model.graphentities.MutableProperty))) [warn] edge.properties.get(key) match { [warn] ^ [warn] /scratch/Raphtory/src/main/scala/com/raphtory/RaphtoryComponent.scala:44:9: object JavaConversions in package collection is deprecated (since 2.12.0): use JavaConverters [warn] JavaConversions.asJavaIterable( [warn] ^ [warn] /scratch/Raphtory/src/main/scala/com/raphtory/RaphtoryServer.scala:119:11: object JavaConversions in package collection is deprecated (since 2.12.0): use JavaConverters [warn] JavaConversions.asJavaIterable( [warn] ^ [warn] /scratch/Raphtory/src/main/scala/com/raphtory/RaphtoryServer.scala:147:31: object JavaConversions in package collection is deprecated (since 2.12.0): use JavaConverters [warn] val seeds = config.getList("akka.cluster.seed-nodes").toList [warn] ^ [warn] /scratch/Raphtory/src/main/scala/com/raphtory/RaphtoryServer.scala:148:31: object JavaConversions in package collection is deprecated (since 2.12.0): use JavaConverters [warn] val roles = config.getList("akka.cluster.roles").toList [warn] ^ [warn] /scratch/Raphtory/src/main/scala/com/raphtory/dev/allcommands/ResultsCompare.scala:28:82: value DEFAULT_CODEC_REGISTRY in package codecs is deprecated (since 2.9.0): Please use org.mongodb.scala.MongoClient.DEFAULT_CODEC_REGISTRY instead [warn] val codecRegistry = fromRegistries(fromProviders(classOf[StateCheckResult]), DEFAULT_CODEC_REGISTRY ) [warn] ^ [warn] /scratch/Raphtory/src/main/scala/com/raphtory/dev/allcommands/ResultsCompare.scala:58:92: value DEFAULT_CODEC_REGISTRY in package codecs is deprecated (since 2.9.0): Please use org.mongodb.scala.MongoClient.DEFAULT_CODEC_REGISTRY instead [warn] val codecRegistry = fromRegistries(fromProviders(classOf[ConnectedComponentsResults]), DEFAULT_CODEC_REGISTRY ) [warn] ^ [warn] 18 warnings found [info] Done compiling. [warn] Multiple main classes detected. Run 'show discoveredMainClasses' to see the list [info] Strategy 'concat' was applied to 2 files (Run the task at debug level to see details) [info] Strategy 'discard' was applied to 3 files (Run the task at debug level to see details) [info] Strategy 'filterDistinctLines' was applied to 11 files (Run the task at debug level to see details) [info] Strategy 'first' was applied to 1696 files (Run the task at debug level to see details) [info] Strategy 'rename' was applied to 14 files (Run the task at debug level to see details) [success] Total time: 120 s (02:00), completed 30 Apr 2021, 12:48:29 root> chmod -R go=u $RAPHTORY_HOME $SBT_IVY_HOME ```
AT TESTING TIME ``` > cd /scratch/Raphtory > which scala /usr/bin/scala > scala Welcome to Scala 2.11.12 (OpenJDK 64-Bit Server VM, Java 11.0.10) Type in expressions for evaluation. Or try :help: scala> :quit > sbt -v -Dsbt.ivy.home=/scratch/Raphtory/ivy2 run com.raphtory.test.allcommands.AllCommandsTest [sbt_options] declare -a sbt_options=() [process_args] java_version = '11' [copyRt] java9_rt = '/home/james.robinson/.sbt/0.13/java9-rt-ext-ubuntu_11_0_10/rt.jar' copying runtime jar... # Executing command line: java -Xms512M -Xmx4096M -Xss2M -XX:MaxMetaspaceSize=1024M -Dsbt.ivy.home=/scratch/Raphtory/ivy2 -Dscala.ext.dirs=/home/james.robinson/.sbt/0.13/java9-rt-ext-ubuntu_11_0_10 -jar /usr/share/sbt/bin/sbt-launch.jar run com.raphtory.test.allcommands.AllCommandsTest [info] [launcher] getting org.scala-sbt sbt 1.3.8 (this may take some time)... You probably access the destination server through a proxy server that is not well configured. You probably access the destination server through a proxy server that is not well configured. You probably access the destination server through a proxy server that is not well configured. You probably access the destination server through a proxy server that is not well configured. You probably access the destination server through a proxy server that is not well configured. You probably access the destination server through a proxy server that is not well configured. You probably access the destination server through a proxy server that is not well configured. You probably access the destination server through a proxy server that is not well configured. :: problems summary :: :::: WARNINGS Host repo1.maven.org not found. url=https://repo1.maven.org/maven2/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.pom Host repo1.maven.org not found. url=https://repo1.maven.org/maven2/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.jar Host repo.scala-sbt.org not found. url=https://repo.scala-sbt.org/scalasbt/maven-releases/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.pom Host repo.scala-sbt.org not found. url=https://repo.scala-sbt.org/scalasbt/maven-releases/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.jar Host repo.scala-sbt.org not found. url=https://repo.scala-sbt.org/scalasbt/maven-snapshots/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.pom Host repo.scala-sbt.org not found. url=https://repo.scala-sbt.org/scalasbt/maven-snapshots/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.jar Host repo.typesafe.com not found. url=https://repo.typesafe.com/typesafe/ivy-releases/org.scala-sbt/sbt/1.3.8/ivys/ivy.xml Host repo.scala-sbt.org not found. url=https://repo.scala-sbt.org/scalasbt/ivy-snapshots/org.scala-sbt/sbt/1.3.8/ivys/ivy.xml module not found: org.scala-sbt#sbt;1.3.8 ==== local: tried /scratch/Raphtory/ivy2/local/org.scala-sbt/sbt/1.3.8/ivys/ivy.xml -- artifact org.scala-sbt#sbt;1.3.8!sbt.jar: /scratch/Raphtory/ivy2/local/org.scala-sbt/sbt/1.3.8/jars/sbt.jar ==== local-preloaded-ivy: tried file:////home/james.robinson/.sbt/preloaded/org.scala-sbt/sbt/1.3.8/ivys/ivy.xml ==== local-preloaded: tried file:////home/james.robinson/.sbt/preloaded/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.pom -- artifact org.scala-sbt#sbt;1.3.8!sbt.jar: file:////home/james.robinson/.sbt/preloaded/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.jar ==== Maven Central: tried https://repo1.maven.org/maven2/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.pom -- artifact org.scala-sbt#sbt;1.3.8!sbt.jar: https://repo1.maven.org/maven2/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.jar ==== sbt-maven-releases: tried https://repo.scala-sbt.org/scalasbt/maven-releases/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.pom -- artifact org.scala-sbt#sbt;1.3.8!sbt.jar: https://repo.scala-sbt.org/scalasbt/maven-releases/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.jar ==== sbt-maven-snapshots: tried https://repo.scala-sbt.org/scalasbt/maven-snapshots/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.pom -- artifact org.scala-sbt#sbt;1.3.8!sbt.jar: https://repo.scala-sbt.org/scalasbt/maven-snapshots/org/scala-sbt/sbt/1.3.8/sbt-1.3.8.jar ==== typesafe-ivy-releases: tried https://repo.typesafe.com/typesafe/ivy-releases/org.scala-sbt/sbt/1.3.8/ivys/ivy.xml ==== sbt-ivy-snapshots: tried https://repo.scala-sbt.org/scalasbt/ivy-snapshots/org.scala-sbt/sbt/1.3.8/ivys/ivy.xml :::::::::::::::::::::::::::::::::::::::::::::: :: UNRESOLVED DEPENDENCIES :: :::::::::::::::::::::::::::::::::::::::::::::: :: org.scala-sbt#sbt;1.3.8: not found :::::::::::::::::::::::::::::::::::::::::::::: :: USE VERBOSE OR DEBUG MESSAGE LEVEL FOR MORE DETAILS [error] [launcher] unresolved dependency: org.scala-sbt#sbt;1.3.8: not found [error] [launcher] error during sbt launcher: error retrieving required libraries (see /home/james.robinson/.sbt/boot/update.log for complete log) [error] [launcher] could not retrieve sbt 1.3.8 ```

It looks to me like the problem might be with sbt itself. Is it trying to update itself? Any thoughts @felixcdr @miratepuffin ?

Note the command should be: sbt -v -Dsbt.ivy.home=/opt/sbt/ivy run com.raphtory.test.allcommands.AllCommandsTest

jemrobinson commented 3 years ago

Had a hack session with @felixcdr and @miratepuffin. Nothing was obviously wrong, but the sbt process was hanging.

@felixcdr will investigate using a VM with the same Ubuntu version (18.04.5). For reference, the Safe Haven VM was using

miratepuffin commented 3 years ago

Hi @jemrobinson, @felixcdr have been testing this on a container of exactly the same linux version we were working with during the hack session and everything seems to be working correctly. This includes the moving of files and cutting of network connection. Would you be up for a second quick hack together to try this on a fresh azure instance (non safe haven initially) where we reproduce the safe haven restrictions to see if we can pin down the issue.

jemrobinson commented 3 years ago

Yes, that's fine by me. I should have some time for this next week. Shall we fix a time by email?

miratepuffin commented 3 years ago

Sorry for the delay @jemrobinson, I didn't get the notification, that sounds great! Will drop you an email with Felix in the morning.

jemrobinson commented 3 years ago

Had a hack session with @felixcdr and @miratepuffin where we looked at trying to set this up on a fresh Ubuntu VM with networking turned on for the initial stages and then turned off afterwards

WITH NETWORKING ON

root> cd /scratch
root> git clone https://github.com/Raphtory/Raphtory.git
root> cd Raphtory && sbt clean assembly
root> sbt "runMain com.raphtory.dev.allcommands.AllCommandTest"
root> mkdir ivy2
root> cp -R ~/.ivy2/cache /scratch/Raphtory/ivy2
root> cp -R ~/.sbt /scratch/Raphtory/.sbt
root> chmod -R go=u /scratch/Raphtory

WITH NETWORKING OFF

cd /scratch/Raphtory
cp -R /scratch/Raphtory/.sbt ~/
sbt "set offline := true" -Dsbt.ivy.home=/scratch/Raphtory/ivy2 run com.raphtory.dev.allcommands.AllCommandsTest

this did not work either - the program still attempts to download dependencies on first run

[info] Loading settings for project raphtory-build from plugins.sbt ...
[info] Loading project definition from /scratch/Raphtory/project
[info] Updating

  | => raphtory-build / update 3s
https://repo1.maven.org/maven2/org/scala-lang/scala-library/2.12.10/scala-library-2.12.10.pom
    0.0% [          ] 0 B (0 B / s)
https://repo1.maven.org/maven2/com/eed3si9n/sbt-assembly_2.12_1.0/0.14.9/sbt-assembly-0.14.9.pom
    0.0% [          ] 0 B (0 B / s)
https://repo1.maven.org/maven2/com/typesafe/sbt/sbt-native-packager_2.12_1.0/1.3.1/sbt-native-packager-1.3.1.pom
    0.0% [          ] 0 B (0 B / s)
jemrobinson commented 2 years ago

Closing due to lack of activity in the past 6 months.