text:
5.0.1: The "files" glob patterns is not working properly

Current behavior
For version4, I use "reportFiles" to ignore some unuseful “.ts” or ".tsx" files, this plugin works normaly.
reportFiles: ['./src/**/*.{ts,tsx}', '!src/ts/**/*.{ts,tsx}']

For version5, I use "eslint" -> "files" to ignore same files.
For example:
files: ['./src/**/*.{ts,tsx}', '!src/ts/**/*.{ts,tsx}']

But this plugin throws an error:
Error: No files matching 'D:/GitHub/code-twitter/!src/ts/**/*.{ts,tsx}' were found.

It seems like a path, not glob patterns.
Is this a normal behavior?
Sorry for my bad english.
Expected behavior
The "files" option should ignore files properly.
Steps to reproduce the issue

Issue reproduction repository

Environment

fork-ts-checker-webpack-plugin: 5.0.1
typescript: 3.9.5
eslint: 7.2.0
webpack: 4.43.0
os: Windows 10 1909

The files parameter works inclusive - not exclusive. If some of the patterns don't resolve to existing files, eslint will throw an error (it behaves the same as eslint command).
If you want to mimic the behavior of reportFiles, you can use issue option:
  issue: {
    exclude: [
      {
        origin: 'eslint',
        file: 'src/ts/**/*.{ts,tsx}'
      }
    ]
  }

It works now, thanks.

authors: DevAngsy piotr-oles


text:
[BUG] Documentation: @HeaderParams() incorrectly shows documentation for @Headers()

I apologize if this is the wrong format to be reporting this, but I did not see any feedback sections on the website, and searching for this build error online did not return any results.
https://tsed.io/api/common/mvc/decorators/params/HeaderParams.html#overview
In the second code sample, we can see:

@Controller('/')
class MyCtrl {
   @Get('/')
   get(@Header() body: any) {
      console.log('Entire body', body);
   }

   @Get('/')
   get(@Header('x-token') token: string) {
      console.log('token', id);
   }
}

But when used with the @Header() as stated above this causes the following build error:
UnsupportedDecoratorType [Error]: Returns cannot be used as parameter decorator on [Controller Name]
To fix this, I used the @HeaderParams() decorator instead of @Header():
@Controller('/')
class MyCtrl {

   @Get('/')
   get(@HeaderParams('x-token') token: string) {
      console.log('token', id);
   }

}

Hello @reed-lawrence
Thanks for your feedback. Yes the code example is totally wrong. The Header decorators is here to set response header, while HeaderParams is here to get request header.
I'll fix that :)
Thanks again!
See you
Romain

PR https://github.com/TypedProject/tsed/pull/1020/files

source: gharchive/issue

authors: Romakita reed-lawrence

repo: TypedProject/tsed

license: MIT

license_type: permissive

license_source: github-api


text:
fix(TYP-8260): Prevent undefined trackingId

While fixing TYP-8260 noticed that sometimes we do not receive the trackingId directly.
With @mathio we discussed the possibility of reading it from dataLayer.
This PR addresses that issue, by iterating on dataLayer and fetching the trackingId in 'config'

[BOT] Preview available with hash aef977f6247cb883f7c0185a339e016ed534261c here.

[BOT] Preview available with hash 8d6f294e07164c56168d199a6a86c493ddc78dca here.

:tada: This PR is included in version @typeform/embed-v2.9.2 :tada:
The release is available on:

npm package (@latest dist-tag)
GitHub release

Your semantic-release bot :package::rocket:

source: gharchive/pull-request

repo: Typeform/embed


text:
🛑 Migasfree Server OPL is down

In 9ece743, Migasfree Server OPL (https://migasfree.opl.uab.cat) was down:

HTTP code: 0
Response time: 0 ms

Resolved: Migasfree Server OPL is back up in 6341279 after 4 minutes.

repo: UAB-OPL/opl-uab-monitoring


text:
sources are smushed together

When an entry has multiple sources, they get displayed inline with no spaces separating them, making it hard/impossible to tell that these are distinct sources.

We should add space or some other indication that each source is distinct.

yes, we should apply some space boundary -> @nienna73, you could look into this.

This doesn't seem to be an issue since updating the dictionary.

authors: aarppe dwhieb nienna73

repo: UAlbertaALTLab/morphodict


text:
ISSUE 5: README Type

I think you have a small error in your README under the License: Alan PowPowichrowski
I can quickly fix this!

thank you!

authors: alanpow rafecchang


text:
Commit Messages and Semantic Release

@MoNorouzi23 @nassimgha @allan8392
Friendly reminder to write the commit messages that work with semantic release.
For fixes, your commit message should start with fix:; e.g. fix: Feedback addressed by fixing this bug.
For features, your commit message should start with feat:, e.g. feat: Feedback addressed by implement this feature.
For more information, read this section of the notes: https://pages.github.ubc.ca/MDS-2023-24/DSCI_524_collab-sw-dev_book/materials/lectures/07_lecture-cd-semver-and-docs.html#conventional-commit-messages

Hey Jerry, thanks for reminding!

Hi Jerry, Thanks for reminding us about this.


text:
Open wire check

Summary

Changelist

Testing Done

Resolved Issues

Checklist
Please change [ ] to [x] when you are ready.

[ ] I have read and followed the code conventions detailed in README.md (This will save time for both you and the reviewer!).
[ ] If this pull request is longer then 500 lines, I have provided explicit justification in the summary above explaining why I cannot break this up into multiple pull requests (Small PR's are faster and less painful for everyone involved!).

Closing this for now since I want to rethink the implementation now that we're not on a time crunch.


text:
Package upgrade: firebase_analytics 8.1.0 --> 8.3.3

Summary
Package upgrade: firebase_analytics 8.1.0 --> 8.3.3
Changelog
[General] [Change] - Upgrade firebase_analytics from 8.1.0 to 8.3.3 (changelog)
Test Plan
Regression test the following areas:
./lib/core/providers/user.dart
./lib/app_provider.dart

Deferred

repo: UCSD/campus-mobile

license: mit

license_source: bigquery


text:
Tool crash due to keypress event

When current browser is not initiated and if we press CTRL + C it causes tool to crash. Which might be because of no instance of current text browser.

Completed at commit 67ad2028272eb380fa0bdf2d2e50d127f568432a

repo: UDAAN-LEAP/leap-pe-tool


text:
Email to user that linking process is done is not sent for matching

When performing reconciliation with wikidata, an email is sent to the user that informs them that the process has finished.
The same does not happen when performing reconciliation / matching with another dataset.

Works fine now. Thanks.

repo: UHaifa-IS/whgazetteer-mehdie


text:
Some AMPI collectives on MPI_COMM_SELF are broken

Original issue: https://charm.cs.illinois.edu/redmine/issues/1051

All non-blocking collectives need to set the request to MPI_REQUEST_NULL before copying the buffer and returning MPI_SUCCESS.
MPI_Alltoallv, MPI_Ialltoallv, MPI_Alltoallw, and MPI_Ialltoallw (and the (I)neighbor versions of these) don't copy the send buffer to the recv buffer before returning MPI_SUCCESS.

Original date: 2016-04-30 02:23:08

~~https://charm.cs.illinois.edu/gerrit/#/c/1169/~~ https://github.com/UIUC-PPL/charm/commit/ca0146186922ee17cb8883fd37e710cd57317e05

repo: UIUC-PPL/charm


text:
Iterative LB example to demonstrate hang with CMK_GLOBAL_LOCATION_UPDATE

The added example (examples/charm++/load_balancing/iterative) demonstrates a hang with LB when Charm++ is compiled with CMK_GLOBAL_LOCATION_UPDATE. Also confirmed that it doesn't hang without CMK_GLOBAL_LOCATION_UPDATE. Tested on LLNL Lassen.
Charm++ build command: ./build charm++ ucx-linux-ppc64le smp ompipmix -j -g -O0 --basedir=$HOME/openmpi-4.0.1/install -DCMK_GLOBAL_LOCATION_UPDATE
Test command: jsrun -n2 -a1 -c2 -g1 -K1 -r2 ./iterative -i 100 +ppn 1 +pemap L0,80 +commap L4,84 +balancer RotateLB +LBDebug 1
Output:
Charm++> Running in SMP mode: 2 processes, 1 worker threads (PEs) + 1 comm threads per process, 2 PEs total
Charm++> The comm. thread both sends and receives messages
Converse/Charm++ Commit ID: v6.11.0-devel-208-g4ad39a43d
Isomalloc> Synchronized global address space.
CharmLB> Verbose level 1, load balancing period: -1 seconds
CharmLB> Load balancer assumes all CPUs are same.
Charm++> cpu affinity enabled.
Charm++> cpuaffinity PE-core map (logical indices): 0,80
HWLOC> [0] Thread 0x200001331640 bound to cpuset: 0x00000100
Charm++> Running on 1 hosts (2 sockets x 20 cores x 4 PUs = 160-way SMP)
Charm++> cpu topology info is gathered in 0.003 seconds.
CharmLB> RotateLB created.
[Load balancing itertions test]
Iters: 100, Data size: 128 bytes
Testing chare array...
CharmLB> RotateLB: PE [0] step 0 starting at 0.012207 Memory: 236.687500 MB
CharmLB> RotateLB: PE [0] strategy starting at 0.012472
CharmLB> RotateLB: PE [0] Memory: LBManager: 37 KB CentralLB: 1 KB
CharmLB> RotateLB: PE [0] #Objects migrating: 2, LBMigrateMsg size: 0.00 MB
CharmLB> RotateLB: PE [0] strategy finished at 0.012478 duration 0.000007 s
CharmLB> RotateLB: PE [0] step 0 finished at 0.012588 duration 0.000380 s

Same hang with PAMILRTS build (./build charm++ pamilrts-linux-ppc64le smp -j -g -O0 -DCMK_GLOBAL_LOCATION_UPDATE), so pretty sure it's a problem with the flag and not the machine layer.

#2827 fixes the hang.


text:
Clean up

What

Amend kube files and config files as part of resolving IMB-34
allow data folder to be pushed to GitHub to allow uans to be retrieved
Add warning log regarding data folder to server.js
Update yarn.lock

Why

To clean up kube files and resolve issues discovered such as :

large number of pods running in branch namespace and not tearing down over the weekend
uploaded case sheet in s3 bucket not being found when running app
updating rds image to most recent
updating readme documentation to include
unblocking uan verification in branch and uat environment

NB - The warning log has been added to server.js as the data folder should not be deployed to production. A ticket will be created to work on resolving the bug that causes errors when the data folder is not included.
How

amended minimum and maximum number of pods for branch environment in hpa-ima.yml
amended rds api image to most recent in rds deployment yml
amended tear down branch url in deploy.sh
amended readme
amended config.js
updated yarn.lock
amend test setup to pass server unit test
added warning log

Testing

Tests passing locally

NB - Snyk vulnerability needs to be updated in hof - a ticket is to be created for this

Got says the excel file is empty is that right?

This is file is created automatically when the server is started  and gets the object from the s3 bucket.  I have added the extension to .gitignore and it have tested in branch.

is it worth explaining that @Rhodine-orleans-lindsay ?

Great PR & commit message, would it be worth being more specific with the subject
e.g. Fix UAN DB issues & too many pods running

is it worth explaining that @Rhodine-orleans-lindsay ?

👍🏾 I have added comments in the file now @sulthan-ahmed

authors: Rhodine-orleans-lindsay sulthan-ahmed

repo: UKHomeOffice/ima


text:
Log out button issues

Log out button is not signing people out. I am prompted with the Shibboleth button and agree and close my browser window and re-open and I'm still logged in.

It seems like this is an issue with the "Restore previous session" type options in browsers, where it retains your previous tabs/windows after closing and reopening your browser.  Does this match up with what you experienced?  I was able to replicate the issue in Firefox by having it restore my previous session, even if there wasn't a CDR tab in the set of restored tabs.  If you don't use this option, you will be properly logged out when you reopen your browser.
This is pretty bad, but unfortunately its an issue with how Shibboleth interacts with web browsers rather than being CDR related, since we don't do any of the session clearing.

That sounds like the behavior I saw. Thanks for looking into it.

I think this issue results from a Tomcat session rather than a SSO token..  The UNC SSO token is used the first time, to authenticate the user. Once a session is established, I think tomcat will maintain that session until we destroy it or it times out.
What we really need to do is make the logout button destroy the tomcat session. If we do that, then I'm not even sure we need to logout of SSO in general. The person's SSO login is still good for logging into the CDR again or other campus services. Or we could redirect to the SSO logout after performing session destroy.

I think if we don't destroy the SSO then the next user that comes along can
just click the login button and automatically log in as whoever last logged
into Shibb.  The shibb logout page talks about the need to close your
browser entirely because shibb doesn't really do logout very well.  It
would be nice to have a less arduous logout process, losing ones browser
state is a lot to ask in some cases.  So if there's something we can do
Tomcat side then I'd be interested, but I think were dependent on the shibb
logout process because of how the cookies are created.
On Wed, Nov 2, 2011 at 2:41 PM, Gregory Jansen <
reply@reply.github.com>wrote:

I think this issue results from a Tomcat session rather than a SSO token..
The UNC SSO token is used the first time, to authenticate the user. Once a
session is established, I think tomcat will maintain that session until we
destroy it or it times out.
What we really need to do is make the logout button destroy the tomcat
session. If we do that, then I'm not even sure we need to logout of SSO in
general. The person's SSO login is still good for logging into the CDR
again or other campus services. Or we could redirect to the SSO logout
after performing session destroy.
--
Reply to this email directly or view it on GitHub:
https://github.com/UNC-Libraries/Carolina-Digital-Repository/issues/6#issuecomment-2607627

I bet I can manually remove the UNC SSO cookie and still have a tomcat session..  Tomcat is setting it's own session tracking cookie after Apache authenticates the user via shib.
Also, can we add a "Hello, COUNT0" message to the banner, so that the user knows who is logged in.

You can probably manually remove it in your browser, but the cookies are
associated with the SSO and I believe you therefore can't do a real logout
from the CDR without a full browser closing
https://wiki.brown.edu/confluence/display/CISDOC/Shibboleth+and+Application+Logout+Best+Practices
"Shibboleth works the same way that many online banking applications work;
they remind users that the only way to ensure that the authentication
session is terminated is to close all browser windows and tabs and quit the
browser."
Good suggestion with the username in the banner, I'll mention it to Jill.
It'll be a good anchor for getting to the user profile/permissions page
when we get to that
On Wed, Nov 2, 2011 at 5:18 PM, Gregory Jansen <
reply@reply.github.com>wrote:

I bet I can manually remove the UNC SSO cookie and still have a tomcat
session..  Tomcat is setting it's own session tracking cookie after Apache
authenticates the user via shib.
Also, can we add a "Hello, COUNT0" message to the banner, so that the user
knows who is logged in.
--
Reply to this email directly or view it on GitHub:
https://github.com/UNC-Libraries/Carolina-Digital-Repository/issues/6#issuecomment-2609848

I think the issue here is that you are really logged in to two things, UNC's Single-Signon server, our Apache Shibboleth service and our Tomcat server session. At leave tomcat and unc sso are separate cookies, though I'm not sure that our apache shib sets one of it's own.
If you don't sign out of UNC SSO, you will be automatically authenticated when you visit a protected CDR page. If you don't kill the tomcat session, I think you will remain authenticated even if your SSO cookie is removed.

authors: bbpennel diplomatica gregjan


text:
Fix Resource folder not found in some environments

Some IDE's default to building binary artifacts in another folder and running them there. For example, CLion builds and runs executables in ${PROJECT_SRC_DIR}/cmake-build-debug.
The application expects to be run in the same folder with Resources . When the current directory does not contain Resources folder, the application cannot continue.
Previous solution symlink'd the Resource folder. It does not work when the project resides in an exFAT, FAT32 or NTFS < 3.1 partition, as they do not support symlinks.
A more robust solution modifies CMake configuration to copy Resources to ${PROJECT_BINARY_DIR} when building the application.

Thanks for your contribution! At this time, we do not aim to support the filesystems mentioned above. We are exploring future improvements in this area, but they are low-priority at this time.

repo: UPB-Graphics/Framework-EGC


text:
NOTE: Process DONUT_FALLS:fastp (ATCC6258-FT) terminated with an error exit status (137)

not executing successfully. Command was:
nextflow run UPHL-BioNGS/Donut_Falls -r 1.8.24207 -profile docker --sample_sheet samples.csv
here's the trace
task_id	hash	native_id	name	status	exit	submit	duration	realtime	%cpu	peak_rss	peak_vmem	rchar	wchar
1	d2/10c13a	1356809	DONUT_FALLS:fastp (ATCC6258-FT)	FAILED	137	2024-11-01 12:06:47.587	16.5s	16.3s	-	-	-	-	-
3	20/770ed6	1357670	DONUT_FALLS:fastp (ATCC6258-FT)	FAILED	137	2024-11-01 12:07:04.096	17.1s	17.1s	-	-	-	-	-
2	9e/6512f1	1356816	DONUT_FALLS:nanoplot (ATCC6258-FT)	COMPLETED	0	2024-11-01 12:06:47.595	1m 35s	9s	203.9%	2.2 GB	57.9 GB	73.1 MB	4.6 MB
4	4c/f61892	1363151	DONUT_FALLS:versions (extracting versions)	COMPLETED	0	2024-11-01 12:08:22.677	567ms	54ms	93.0%	6.9 MB	16.1 MB	681.2 KB	955 B
5	b6/333f3f	1363375	DONUT_FALLS:summary (Creating summary)	COMPLETED	0	2024-11-01 12:08:23.297	616ms	48ms	114.8%	6.2 MB	15.9 MB	553.6 KB	900 B
6	5d/c0486b	1363383	DONUT_FALLS:multiqc (combining reports)	COMPLETED	0	2024-11-01 12:08:23.306	4.4s	3.7s	117.9%	83.5 MB	1014.7 MB	59.4 MB	2.4 MB

!!!
This is a problem!!!
Can you share the full error message?

I think that's all it said
`nextflow run UPHL-BioNGS/Donut_Falls -r 1.8.24207 -profile docker --sample_sheet samples.csv
N E X T F L O W   ~  version 24.10.0
Launching https://github.com/UPHL-BioNGS/Donut_Falls [nostalgic_blackwell] DSL2 - revision: 54982d3c21 [1.8.24207]

|  ) _   _      )    )_ _   ) ) _
|/ () ) ) (( (    (  (_( ( ( (
_)
Currently using the Donut Falls workflow for use with nanopore sequencing
Author: Erin Young
email: eriny@utah.gov
Version: 1.8.24207
executor >  local (3)
[-        ] DONUT_FALLS:mash                   -
[f3/b2a699] DONUT_FALLS:fastp (ATCC6258-FT)    | 1 of 2, failed: 1, retries: 1
[-        ] DONUT_FALLS:rasusa                 -
[-        ] DONUT_FALLS:flye                   -
[-        ] DONUT_FALLS:bandage                -
[-        ] DONUT_FALLS:gfastats               -
[-        ] DONUT_FALLS:gfa_to_fasta           -
executor >  local (3)
[-        ] DONUT_FALLS:mash                   -
[f3/b2a699] DONUT_FALLS:fastp (ATCC6258-FT)    | 1 of 2, failed: 1, retries: 1
[-        ] DONUT_FALLS:rasusa                 -
[-        ] DONUT_FALLS:flye                   -
[-        ] DONUT_FALLS:bandage                -
[-        ] DONUT_FALLS:gfastats               -
[-        ] DONUT_FALLS:gfa_to_fasta           -
[-        ] DONUT_FALLS:dnaapler               -
[-        ] DONUT_FALLS:medaka                 -
[-        ] DONUT_FALLS:bwa                    -
[-        ] DONUT_FALLS:polypolish             -
[-        ] DONUT_FALLS:pypolca                -
[81/241ffe] DONUT_FALLS:nanoplot (ATCC6258-FT) | 0 of 1
[-        ] DONUT_FALLS:busco                  -
[-        ] DONUT_FALLS:png                    -
[-        ] DONUT_FALLS:circulocov             -
[-        ] DONUT_FALLS:versions               -
[-        ] DONUT_FALLS:summary                -
[-        ] DONUT_FALLS:multiqc                -
[-        ] DONUT_FALLS:copy                   -
[76/0d5ea4] NOTE: Process DONUT_FALLS:fastp (ATCC6258-FT) terminated with an error exit status (137) -- Execution is retried (1)`

That's mysterious. Can you share your .nextflow.log file?
If I remember correctly, you either need to copy the contents as a message or change the file extension to something like .txt

Nov-01 12:06:43.088 [main] DEBUG nextflow.cli.Launcher - $> nextflow run UPHL-BioNGS/Donut_Falls -r 1.8.24207 -profile docker --sample_sheet samples.csv
Nov-01 12:06:43.164 [main] DEBUG nextflow.cli.CmdRun - N E X T F L O W  ~  version 24.10.0
Nov-01 12:06:43.183 [main] DEBUG nextflow.plugin.PluginsFacade - Setting up plugin manager > mode=prod; embedded=false; plugins-dir=/home/sean/.nextflow/plugins; core-plugins: nf-amazon@2.9.0,nf-azure@1.10.1,nf-cloudcache@0.4.2,nf-codecommit@0.2.2,nf-console@1.1.4,nf-google@1.15.2,nf-tower@1.9.3,nf-wave@1.7.2
Nov-01 12:06:43.221 [main] INFO  o.pf4j.DefaultPluginStatusProvider - Enabled plugins: []
Nov-01 12:06:43.222 [main] INFO  o.pf4j.DefaultPluginStatusProvider - Disabled plugins: []
Nov-01 12:06:43.224 [main] INFO  org.pf4j.DefaultPluginManager - PF4J version 3.12.0 in 'deployment' mode
Nov-01 12:06:43.235 [main] INFO  org.pf4j.AbstractPluginManager - No plugins
Nov-01 12:06:43.244 [main] DEBUG nextflow.scm.ProviderConfig - Using SCM config path: /home/sean/.nextflow/scm
Nov-01 12:06:43.734 [main] DEBUG nextflow.scm.AssetManager - Git config: /home/sean/.nextflow/assets/UPHL-BioNGS/Donut_Falls/.git/config; branch: main; remote: origin; url: https://github.com/UPHL-BioNGS/Donut_Falls.git
Nov-01 12:06:43.765 [main] DEBUG nextflow.scm.RepositoryFactory - Found Git repository result: [RepositoryFactory]
Nov-01 12:06:43.780 [main] DEBUG nextflow.scm.AssetManager - Git config: /home/sean/.nextflow/assets/UPHL-BioNGS/Donut_Falls/.git/config; branch: main; remote: origin; url: https://github.com/UPHL-BioNGS/Donut_Falls.git
Nov-01 12:06:44.350 [main] DEBUG nextflow.config.ConfigBuilder - Found config base: /home/sean/.nextflow/assets/UPHL-BioNGS/Donut_Falls/nextflow.config
Nov-01 12:06:44.352 [main] DEBUG nextflow.config.ConfigBuilder - Parsing config file: /home/sean/.nextflow/assets/UPHL-BioNGS/Donut_Falls/nextflow.config
Nov-01 12:06:44.359 [main] DEBUG n.secret.LocalSecretsProvider - Secrets store: /home/sean/.nextflow/secrets/store.json
Nov-01 12:06:44.366 [main] DEBUG nextflow.secret.SecretsLoader - Discovered secrets providers: [nextflow.secret.LocalSecretsProvider@2ec99035] - activable => nextflow.secret.LocalSecretsProvider@2ec99035
Nov-01 12:06:44.377 [main] DEBUG nextflow.config.ConfigBuilder - Applying config profile: `docker`
Nov-01 12:06:44.507 [main] DEBUG nextflow.config.ConfigBuilder - Available config profiles: [test, campy, singularity, docker]
Nov-01 12:06:44.556 [main] DEBUG nextflow.cli.CmdRun - Applied DSL=2 from script declaration
Nov-01 12:06:44.557 [main] DEBUG nextflow.cli.CmdRun - Launching `https://github.com/UPHL-BioNGS/Donut_Falls` [irreverent_jang] DSL2 - revision: 54982d3c21 [1.8.24207]
Nov-01 12:06:44.558 [main] DEBUG nextflow.plugin.PluginsFacade - Plugins default=[]
Nov-01 12:06:44.558 [main] DEBUG nextflow.plugin.PluginsFacade - Plugins resolved requirement=[]
Nov-01 12:06:44.601 [main] DEBUG nextflow.Session - Session UUID: 4433dfab-ea1c-4191-aece-eccdc5abf273
Nov-01 12:06:44.602 [main] DEBUG nextflow.Session - Run name: irreverent_jang
Nov-01 12:06:44.602 [main] DEBUG nextflow.Session - Executor pool size: 20
Nov-01 12:06:44.609 [main] DEBUG nextflow.file.FilePorter - File porter settings maxRetries=3; maxTransfers=50; pollTimeout=null
Nov-01 12:06:44.614 [main] DEBUG nextflow.util.ThreadPoolBuilder - Creating thread pool 'FileTransfer' minSize=10; maxSize=60; workQueue=LinkedBlockingQueue[10000]; allowCoreThreadTimeout=false
Nov-01 12:06:44.628 [main] DEBUG nextflow.cli.CmdRun -
  Version: 24.10.0 build 5928
  Created: 27-10-2024 18:36 UTC (14:36 EDT)
  System: Linux 6.8.0-47-generic
  Runtime: Groovy 4.0.23 on OpenJDK 64-Bit Server VM 21.0.4+7-Ubuntu-1ubuntu224.04
  Encoding: UTF-8 (UTF-8)
  Process: 1356658@DOH-LAB-LNX1 [127.0.1.1]
  CPUs: 20 - Mem: 125.5 GB (84.6 GB) - Swap: 8 GB (6 GB)
Nov-01 12:06:44.644 [main] DEBUG nextflow.Session - Work-dir: /home/sean/Workdir/GridION/SP241030/work [ext2/ext3]
Nov-01 12:06:44.671 [main] DEBUG nextflow.executor.ExecutorFactory - Extension executors providers=[]
Nov-01 12:06:44.678 [main] DEBUG nextflow.Session - Observer factory: DefaultObserverFactory
Nov-01 12:06:44.745 [main] DEBUG nextflow.cache.CacheFactory - Using Nextflow cache factory: nextflow.cache.DefaultCacheFactory
Nov-01 12:06:44.774 [main] DEBUG nextflow.util.CustomThreadPool - Creating default thread pool > poolSize: 21; maxThreads: 1000
Nov-01 12:06:44.860 [main] DEBUG nextflow.Session - Session start
Nov-01 12:06:44.863 [main] DEBUG nextflow.trace.TraceFileObserver - Workflow started -- trace file: /home/sean/Workdir/GridION/SP241030/trace-20241101-43604681.txt
Nov-01 12:06:46.725 [main] DEBUG nextflow.script.ScriptRunner - > Launching execution
Nov-01 12:06:46.733 [main] INFO  nextflow.script.BaseScript -
Nov-01 12:06:46.733 [main] INFO  nextflow.script.BaseScript -  __                    ___
Nov-01 12:06:46.734 [main] INFO  nextflow.script.BaseScript - |  ) _   _      _)_    )_ _   ) ) _
Nov-01 12:06:46.734 [main] INFO  nextflow.script.BaseScript - |_/ (_) ) ) (_( (_    (  (_( ( ( (
Nov-01 12:06:46.734 [main] INFO  nextflow.script.BaseScript -                                  _)
Nov-01 12:06:46.734 [main] INFO  nextflow.script.BaseScript -
Nov-01 12:06:46.734 [main] INFO  nextflow.script.BaseScript - Currently using the Donut Falls workflow for use with nanopore sequencing
Nov-01 12:06:46.735 [main] INFO  nextflow.script.BaseScript - Author: Erin Young
Nov-01 12:06:46.735 [main] INFO  nextflow.script.BaseScript - email: eriny@utah.gov
Nov-01 12:06:46.735 [main] INFO  nextflow.script.BaseScript - Version: 1.8.24207
Nov-01 12:06:46.736 [main] INFO  nextflow.script.BaseScript -
Nov-01 12:06:46.946 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name DONUT_FALLS:mash
Nov-01 12:06:46.958 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
Nov-01 12:06:46.959 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
Nov-01 12:06:46.965 [main] DEBUG nextflow.executor.Executor - [warm up] executor > local
Nov-01 12:06:46.976 [main] DEBUG n.processor.LocalPollingMonitor - Creating local task monitor for executor 'local' > cpus=20; memory=125.5 GB; capacity=20; pollInterval=100ms; dumpInterval=5m
Nov-01 12:06:46.980 [main] DEBUG n.processor.TaskPollingMonitor - >>> barrier register (monitor: local)
Nov-01 12:06:47.066 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name DONUT_FALLS:fastp
Nov-01 12:06:47.068 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
Nov-01 12:06:47.068 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
Nov-01 12:06:47.084 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name DONUT_FALLS:rasusa
Nov-01 12:06:47.085 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
Nov-01 12:06:47.085 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
Nov-01 12:06:47.100 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name DONUT_FALLS:flye
Nov-01 12:06:47.102 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
Nov-01 12:06:47.102 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
Nov-01 12:06:47.129 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name DONUT_FALLS:bandage
Nov-01 12:06:47.130 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
Nov-01 12:06:47.131 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
Nov-01 12:06:47.138 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name DONUT_FALLS:gfastats
Nov-01 12:06:47.140 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
Nov-01 12:06:47.140 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
Nov-01 12:06:47.151 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name DONUT_FALLS:gfa_to_fasta
Nov-01 12:06:47.152 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
Nov-01 12:06:47.152 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
Nov-01 12:06:47.157 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name DONUT_FALLS:dnaapler
Nov-01 12:06:47.159 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
Nov-01 12:06:47.159 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
Nov-01 12:06:47.172 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name DONUT_FALLS:medaka
Nov-01 12:06:47.173 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
Nov-01 12:06:47.173 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
Nov-01 12:06:47.185 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name DONUT_FALLS:bwa
Nov-01 12:06:47.187 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
Nov-01 12:06:47.187 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
Nov-01 12:06:47.192 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name DONUT_FALLS:polypolish
Nov-01 12:06:47.194 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
Nov-01 12:06:47.194 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
Nov-01 12:06:47.208 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name DONUT_FALLS:pypolca
Nov-01 12:06:47.210 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
Nov-01 12:06:47.210 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
Nov-01 12:06:47.227 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name DONUT_FALLS:nanoplot
Nov-01 12:06:47.229 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
Nov-01 12:06:47.229 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
Nov-01 12:06:47.241 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name DONUT_FALLS:busco
Nov-01 12:06:47.242 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
Nov-01 12:06:47.242 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
Nov-01 12:06:47.276 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name DONUT_FALLS:png
Nov-01 12:06:47.278 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
Nov-01 12:06:47.278 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
Nov-01 12:06:47.284 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name DONUT_FALLS:circulocov
Nov-01 12:06:47.285 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
Nov-01 12:06:47.285 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
Nov-01 12:06:47.294 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name DONUT_FALLS:versions
Nov-01 12:06:47.296 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
Nov-01 12:06:47.296 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
Nov-01 12:06:47.325 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name DONUT_FALLS:summary
Nov-01 12:06:47.327 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
Nov-01 12:06:47.327 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
Nov-01 12:06:47.337 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name DONUT_FALLS:multiqc
Nov-01 12:06:47.339 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
Nov-01 12:06:47.339 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
Nov-01 12:06:47.353 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name DONUT_FALLS:copy
Nov-01 12:06:47.354 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
Nov-01 12:06:47.354 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
Nov-01 12:06:47.357 [main] DEBUG nextflow.Session - Workflow process names [dsl2]: unicycler, DONUT_FALLS:medaka, DONUT_FALLS:versions, DONUT_FALLS:copy, rasusa, bandage, pypolca, polypolish, DONUT_FALLS:bandage, medaka, nanoplot, gfastats, DONUT_FALLS:fastp, mash, copy, multiqc, DONUT_FALLS:rasusa, DONUT_FALLS:circulocov, fastp, summary, DONUT_FALLS:nanoplot, flye, DONUT_FALLS:multiqc, raven, test, DONUT_FALLS:gfa_to_fasta, dnaapler, png, DONUT_FALLS:mash, DONUT_FALLS:pypolca, DONUT_FALLS:gfastats, DONUT_FALLS:bwa, gfa_to_fasta, DONUT_FALLS:flye, bwa, nanoplot_summary, DONUT_FALLS:png, DONUT_FALLS:polypolish, DONUT_FALLS:busco, versions, busco, DONUT_FALLS:dnaapler, DONUT_FALLS:summary, circulocov
Nov-01 12:06:47.359 [main] DEBUG nextflow.Session - Igniting dataflow network (26)
Nov-01 12:06:47.363 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > DONUT_FALLS:mash
Nov-01 12:06:47.364 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > DONUT_FALLS:fastp
Nov-01 12:06:47.364 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > DONUT_FALLS:rasusa
Nov-01 12:06:47.364 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > DONUT_FALLS:flye
Nov-01 12:06:47.364 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > DONUT_FALLS:bandage
Nov-01 12:06:47.364 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > DONUT_FALLS:gfastats
Nov-01 12:06:47.364 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > DONUT_FALLS:gfa_to_fasta
Nov-01 12:06:47.364 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > DONUT_FALLS:dnaapler
Nov-01 12:06:47.364 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > DONUT_FALLS:medaka
Nov-01 12:06:47.364 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > DONUT_FALLS:bwa
Nov-01 12:06:47.364 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > DONUT_FALLS:polypolish
Nov-01 12:06:47.364 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > DONUT_FALLS:pypolca
Nov-01 12:06:47.364 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > DONUT_FALLS:nanoplot
Nov-01 12:06:47.364 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > DONUT_FALLS:busco
Nov-01 12:06:47.364 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > DONUT_FALLS:png
Nov-01 12:06:47.364 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > DONUT_FALLS:circulocov
Nov-01 12:06:47.364 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > DONUT_FALLS:versions
Nov-01 12:06:47.365 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > DONUT_FALLS:summary
Nov-01 12:06:47.365 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > DONUT_FALLS:multiqc
Nov-01 12:06:47.365 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > DONUT_FALLS:copy
Nov-01 12:06:47.365 [main] DEBUG nextflow.script.ScriptRunner - Parsed script files:
  Script_0dc632d2faa2652a: /home/sean/.nextflow/assets/UPHL-BioNGS/Donut_Falls/donut_falls.nf
Nov-01 12:06:47.365 [main] DEBUG nextflow.script.ScriptRunner - > Awaiting termination
Nov-01 12:06:47.365 [main] DEBUG nextflow.Session - Session await
Nov-01 12:06:47.394 [Actor Thread 4] DEBUG nextflow.file.SortFileCollector - FileCollector temp dir not removed: null
Nov-01 12:06:47.585 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
Nov-01 12:06:47.587 [Task submitter] INFO  nextflow.Session - [d2/10c13a] Submitted process > DONUT_FALLS:fastp (ATCC6258-FT)
Nov-01 12:06:47.595 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
Nov-01 12:06:47.596 [Task submitter] INFO  nextflow.Session - [9e/6512f1] Submitted process > DONUT_FALLS:nanoplot (ATCC6258-FT)
Nov-01 12:07:04.042 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 1; name: DONUT_FALLS:fastp (ATCC6258-FT); status: COMPLETED; exit: 137; error: -; workDir: /home/sean/Workdir/GridION/SP241030/work/d2/10c13a393ba1e8e184164ff2947b3e]
Nov-01 12:07:04.044 [Task monitor] DEBUG nextflow.util.ThreadPoolBuilder - Creating thread pool 'TaskFinalizer' minSize=10; maxSize=60; workQueue=LinkedBlockingQueue[10000]; allowCoreThreadTimeout=false
Nov-01 12:07:04.062 [TaskFinalizer-1] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
  task: name=DONUT_FALLS:fastp (ATCC6258-FT); work-dir=/home/sean/Workdir/GridION/SP241030/work/d2/10c13a393ba1e8e184164ff2947b3e
  error [nextflow.exception.ProcessFailedException]: Process `DONUT_FALLS:fastp (ATCC6258-FT)` terminated with an error exit status (137)
Nov-01 12:07:04.076 [TaskFinalizer-1] INFO  nextflow.processor.TaskProcessor - [d2/10c13a] NOTE: Process `DONUT_FALLS:fastp (ATCC6258-FT)` terminated with an error exit status (137) -- Execution is retried (1)
Nov-01 12:07:04.096 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
Nov-01 12:07:04.097 [Task submitter] INFO  nextflow.Session - [20/770ed6] Re-submitted process > DONUT_FALLS:fastp (ATCC6258-FT)
Nov-01 12:07:21.199 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 3; name: DONUT_FALLS:fastp (ATCC6258-FT); status: COMPLETED; exit: 137; error: -; workDir: /home/sean/Workdir/GridION/SP241030/work/20/770ed655dab0c04de7f75fe5ce44a3]
Nov-01 12:07:21.203 [TaskFinalizer-2] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
  task: name=DONUT_FALLS:fastp (ATCC6258-FT); work-dir=/home/sean/Workdir/GridION/SP241030/work/20/770ed655dab0c04de7f75fe5ce44a3
  error [nextflow.exception.ProcessFailedException]: Process `DONUT_FALLS:fastp (ATCC6258-FT)` terminated with an error exit status (137)
Nov-01 12:07:21.205 [TaskFinalizer-2] INFO  nextflow.processor.TaskProcessor - [20/770ed6] NOTE: Process `DONUT_FALLS:fastp (ATCC6258-FT)` terminated with an error exit status (137) -- Error is ignored
Nov-01 12:07:21.210 [Actor Thread 11] DEBUG nextflow.file.SortFileCollector - FileCollector temp dir not removed: null
Nov-01 12:07:21.211 [Actor Thread 13] DEBUG nextflow.file.SortFileCollector - FileCollector temp dir not removed: null
Nov-01 12:07:21.216 [Actor Thread 16] DEBUG nextflow.file.SortFileCollector - FileCollector temp dir not removed: null
Nov-01 12:07:21.218 [Actor Thread 13] DEBUG nextflow.file.SortFileCollector - FileCollector temp dir not removed: null
Nov-01 12:08:22.566 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 2; name: DONUT_FALLS:nanoplot (ATCC6258-FT); status: COMPLETED; exit: 0; error: -; workDir: /home/sean/Workdir/GridION/SP241030/work/9e/6512f1071876f15db9839858ecdb60]
Nov-01 12:08:22.613 [TaskFinalizer-3] DEBUG nextflow.util.ThreadPoolBuilder - Creating thread pool 'PublishDir' minSize=10; maxSize=60; workQueue=LinkedBlockingQueue[10000]; allowCoreThreadTimeout=false
Nov-01 12:08:22.647 [Actor Thread 13] DEBUG nextflow.sort.BigSort - Sort completed -- entries: 1; slices: 1; internal sort time: 0.001 s; external sort time: 0.01 s; total time: 0.011 s
Nov-01 12:08:22.647 [Actor Thread 7] DEBUG nextflow.sort.BigSort - Sort completed -- entries: 1; slices: 1; internal sort time: 0.001 s; external sort time: 0.01 s; total time: 0.011 s
Nov-01 12:08:22.654 [Actor Thread 13] DEBUG nextflow.file.FileCollector - Saved collect-files list to: /home/sean/Workdir/GridION/SP241030/work/collect-file/9d1a3ac0125638112a9eac6842dbe13b
Nov-01 12:08:22.654 [Actor Thread 7] DEBUG nextflow.file.FileCollector - Saved collect-files list to: /home/sean/Workdir/GridION/SP241030/work/collect-file/511b618f5430a0365a84bbefe40767b7
Nov-01 12:08:22.659 [Actor Thread 13] DEBUG nextflow.file.FileCollector - Deleting file collector temp dir: /tmp/nxf-9288820374715413236
Nov-01 12:08:22.659 [Actor Thread 7] DEBUG nextflow.file.FileCollector - Deleting file collector temp dir: /tmp/nxf-15108572825948055919
Nov-01 12:08:22.677 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
Nov-01 12:08:22.678 [Task submitter] INFO  nextflow.Session - [4c/f61892] Submitted process > DONUT_FALLS:versions (extracting versions)
Nov-01 12:08:23.245 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 4; name: DONUT_FALLS:versions (extracting versions); status: COMPLETED; exit: 0; error: -; workDir: /home/sean/Workdir/GridION/SP241030/work/4c/f61892251e1679adca09a7041341b2]
Nov-01 12:08:23.296 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
Nov-01 12:08:23.297 [Task submitter] INFO  nextflow.Session - [b6/333f3f] Submitted process > DONUT_FALLS:summary (Creating summary)
Nov-01 12:08:23.306 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
Nov-01 12:08:23.306 [Task submitter] INFO  nextflow.Session - [5d/c0486b] Submitted process > DONUT_FALLS:multiqc (combining reports)
Nov-01 12:08:23.913 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 5; name: DONUT_FALLS:summary (Creating summary); status: COMPLETED; exit: 0; error: -; workDir: /home/sean/Workdir/GridION/SP241030/work/b6/333f3f56cba337cfbfae612e51cb82]
Nov-01 12:08:27.685 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 6; name: DONUT_FALLS:multiqc (combining reports); status: COMPLETED; exit: 0; error: -; workDir: /home/sean/Workdir/GridION/SP241030/work/5d/c0486b8e527bb3a3be6714d2f83eb9]
Nov-01 12:08:27.696 [main] DEBUG nextflow.Session - Session await > all processes finished
Nov-01 12:08:27.785 [Task monitor] DEBUG n.processor.TaskPollingMonitor - <<< barrier arrives (monitor: local) - terminating tasks monitor poll loop
Nov-01 12:08:27.786 [main] DEBUG nextflow.Session - Session await > all barriers passed
Nov-01 12:08:27.789 [main] DEBUG nextflow.util.ThreadPoolManager - Thread pool 'TaskFinalizer' shutdown completed (hard=false)
Nov-01 12:08:27.790 [main] DEBUG nextflow.util.ThreadPoolManager - Thread pool 'PublishDir' shutdown completed (hard=false)
Nov-01 12:08:27.794 [main] INFO  nextflow.script.BaseScript - Pipeline completed at: 2024-11-01T12:08:27.790894720-04:00
Nov-01 12:08:27.795 [main] INFO  nextflow.script.BaseScript - The multiqc report can be found at donut_falls/multiqc/multiqc_report.html
Nov-01 12:08:27.795 [main] INFO  nextflow.script.BaseScript - The consensus fasta files can be found in donut_falls/sample/consensus
Nov-01 12:08:27.796 [main] INFO  nextflow.script.BaseScript - The fasta files are from each phase of assembly. polca > polypolish > medaka > unpolished
Nov-01 12:08:27.796 [main] INFO  nextflow.script.BaseScript - Execution status: OK
Nov-01 12:08:27.803 [main] DEBUG n.trace.WorkflowStatsObserver - Workflow completed > WorkflowStats[succeededCount=4; failedCount=2; ignoredCount=1; cachedCount=0; pendingCount=0; submittedCount=0; runningCount=0; retriesCount=1; abortedCount=0; succeedDuration=25.6s; failedDuration=1m 7s; cachedDuration=0ms;loadCpus=0; loadMemory=0; peakRunning=2; peakCpus=4; peakMemory=24 GB; ]
Nov-01 12:08:27.804 [main] DEBUG nextflow.trace.TraceFileObserver - Workflow completed -- saving trace file
Nov-01 12:08:27.806 [main] DEBUG nextflow.trace.ReportObserver - Workflow completed -- rendering execution report
Nov-01 12:08:28.513 [main] DEBUG nextflow.trace.TimelineObserver - Workflow completed -- rendering execution timeline
Nov-01 12:08:28.831 [main] DEBUG nextflow.cache.CacheDB - Closing CacheDB done
Nov-01 12:08:28.853 [main] DEBUG nextflow.util.ThreadPoolManager - Thread pool 'FileTransfer' shutdown completed (hard=false)
Nov-01 12:08:28.855 [main] DEBUG nextflow.script.ScriptRunner - > Execution complete -- Goodbye

Thank you!
I'm not seeing anything really informative as to why fastp failed, unfortunately.
What is in /home/sean/Workdir/GridION/SP241030/work/d2/10c13a393ba1e8e184164ff2947b3e ?
Other things:
What does your sample sheet look like?
Fastp should run on fastq files, but perhaps your files aren't getting read in correctly. This should throw an error in fastp, though.
How old are your fastq files?
Donut Falls will not run on R9 flow cell and prior reads because the quality is too low. This should also throw a more informative error.

ah yes these are R9s! That would do it
the sample sheet was just one fastq as input. a multifastq of all the individual reads out of this run for this library
I had already deleted the work directory (I'm operating on the razor's edge of storage availability, sorry!)
fastp runs on the fastqs individually, but most of them fail out. I have a hunch this is some kind of strange RAM bug (inexplicably gobbling up 128gb RAM and then also maxing out my SWAP). I'm re-running on the fastp filtered fastqs only and the error seems to have disappeared!
my appologies for using the program incorrectly!

authors: SeanSierra-Patev erinyoung


text:
Added !wolfram and !wolframfull commands

Two commands that interface with the wolfram api in different ways. !wolframfull returns all of the results you would get from any regular query into wolfram.
Examples:

!wolfram on the other hand returns just a short text response that can usually be replied to. For example:

If Wolfram cannot come up with a conversation for that question (seems to be a rare case) then a short answer is instead supplied using their short answers API.
The app id you get from wolfram is free for less than 2000 requests a month which I doubt would ever be exceeded.

This looks lit. I'll give a code review for later :^)

Is there a reason I can't seem to see all the comments you left aside from in my email? I only just noticed there are way more.

I personally never use the emails for anything more than a ping + link to the github bahahhaa

lmk when you want another code review (not sure if you're still changing stuff)

I'll happily change more. So just whenever you have time :)

The conversation api doesn't have  a v2 but the short answer one does so I have changed that.

In future I'd suggest splitting this PR into two halves (!wolfram and !wolframfull) though so that it can be merged quicker, good job though keep it up :^)

...I did just change it to an arg based system though hahaha

bahahaha no wozzas still lgtm. also, really good use of comments throughout your code 👍 makes it much easier to understand

is the code ready to submit? (i.e. tested and still works?)

Yep, all tested and no issues. Though it only works with the changes from #261. I completely forgot until I had to test just then and had to re-pull the changes. I think it is just some auth issue with the test slack I use which the uqcstesting slack doesn't have

interesting. I'll merge anyway as the code doesn't depend on #261 and the bot isn't currently in use anywho

oh looooooooool sorry @CameronAavik for some reason I thought this one was LGTM'd by you bahahaha

authors: mitchmcdee mubiquity

repo: UQComputingSociety/uqcsbot


text:
Team 7 animals aoe2

Description
Please include a summary of the changes and the related issue. Please also include relevant motivation and context. List any dependencies that are required for this change.
Fixes / Closes # (issue)
Type of change
Please delete options that are not relevant.

[ ] Bug fix (non-breaking change which fixes an issue)
[ ] New feature (non-breaking change which adds functionality)
[ ] Breaking change (fix or feature that would cause existing functionality to not work as expected)
[ ] This change requires a documentation update

How Has This Been Tested?
Please describe the tests that you ran to verify your changes. Provide instructions so we can reproduce. Please also list any relevant details for your test configuration

[ ] Test A
[ ] Test B

Checklist:

[ ] My code follows the style guidelines of this project
[ ] I have performed a self-review of my code
[ ] I have commented my code, particularly in hard-to-understand areas
[ ] I have made corresponding changes to the documentation
[ ] My changes generate no new warnings
[ ] I have added tests that prove my fix is effective or that my feature works
[ ] New and existing unit tests pass locally with my changes
[ ] Any dependent changes have been merged and published in downstream modules

@rahulsagar500 please merge team-7-animals into your branch again and confirm all tests are passing

merged from team-7-animals


text:
Stairs bugfix

Description
The bugs related to stairs are fixed here , Th first being the duplication of boss room every time 'B' key binder is clicked there was new instances of boss room created which Is solved in this PR and the Stairs now don't remain in normal rooms after player enters the boss room.
Fixes / Closes # (issue)
#433
#432
Type of change

Bug fix

Please delete options that are not relevant.

[x] Bug fix (non-breaking change which fixes an issue)
[x] New feature (non-breaking change which adds functionality)

Checklist:

[x] My code follows the style guidelines of this project
[x] I have performed a self-review of my code
[x] I have commented my code, particularly in hard-to-understand areas
[x] My changes generate no new warnings
[x] New and existing unit tests pass locally with my changes

@AElanagai please resolve merge conflicts and the comments highlighted above


text:
Integration with weapons

Description
Task: Integrate Crafting System with weapons system.
Feature: Refinement of Crafting Menu and Additional Features
This task will see us working with the weapons team to allow all weapons to be craftable via the crafting system.
Example

Craft Dagger: User uses copper and gold to craft a dagger.

Dependencies
This task ticket relies on the weapons team having a working system to generate weapons and setting crafting recipes for crafting system to use.

[x] Weapons System must finish crafting recipes

Milestones
List of steps that need to be completed for this task.

[x] Be able to get lists of all buildable weapons [Sep.5th]
[x] Be able to display weapons in crafting menu [Sep.6th]
[ ] Craft all weapons in menu [Sep.10th]

Completion Deadline: Sep.14th
e.g.

[ ] Initial design of Armour created and documented on wiki (Aug. 19).
[ ] Unit tests implemented for Armour (Aug. 20).
[ ] Armour class implemented and tested (Aug. 23).
[ ] Documentation of Armour updated on wiki (Aug. 23).

Documentation

Member

Rohan @rkoll55  basementDweller

hi

@eugene2341


text:
Restructure landing page for dataset usage notebook

Description
The index of notebooks looks too crowded, and it would be better to have a separate landing page.
Acceptance Criteria

[x] Restructure new landing page
https://us-ghg-center.github.io/ghgc-docs/pr-preview/pr-60/datausage.html
[ ] Get content approved by communication team
[ ] Added JPL notebook

I'm not a big fan of this format where we duplicate the titles and add a (list) to the end

Maybe there's another better way to do it

@siddharth0248 did you know that you can have both - a landing page for each group, plus the drop-down menu in the TOC on the left?
For example, check out the "Services" item in the VEDA Docs: https://nasa-impact.github.io/veda-docs/services/
It has a landing page with a bit of intro (very slim in this case) but also unfolds the sub-items.
The way this works in Quarto is that you assign a file to the section and still keep the contents:
      - section: services/index.qmd
        contents:
          - services/dashboard.qmd
          - services/apis.qmd
          - services/jupyterhub.qmd

https://github.com/NASA-IMPACT/veda-docs/blob/33fddd858721191d63f5d0aaf23227bd8cb9c9e7/_quarto.yml#L36-L40

Thanks @j08lue !! Slesa suggested the same. I am looking into this 👍

Changes made based on the suggestions provided by @slesaad @j08lue . @deborahUAH has seen the new format and structure.
Content needs to be reviewed. Farnaz has given an initial glance.
@rwyatt19 or @Jeanne-le-Roux anyone wants to take this?

Reviewing today

repo: US-GHG-Center/ghgc-docs


text:
censored data functions choke when there are no censored data records

Describe the bug
Censored data summary function will break if there isn't any censored data in the dataset.
To Reproduce
Steps to reproduce the behavior:

download all PUEBLO_POJOAQUE data using TADAdataRetrieval
run summarizeCensoredData
See error message about replacement rows.

Expected behavior
The app should return the input dataset with a message "No censored data to summarize, returning input dataset"
Screenshots
If applicable, add screenshots to help explain your problem.
Desktop (please complete the following information):

OS: [e.g. iOS]
Browser [e.g. chrome, safari]
Version [e.g. 22]

Smartphone (please complete the following information):

Device: [e.g. iPhone6]
OS: [e.g. iOS8.1]
Browser [e.g. stock browser, safari]
Version [e.g. 22]

Additional context
Add any other context about the problem here.

Note that errors show up for both summarizeCensoredData and simpleCensoredMethods even when only numeric data is in the df. They are just not happy there is no censored data.

authors: cristinamullin ehinman

repo: USEPA/TADA


text:
attempting to embed a link yaml-style

Any idea if this will work @jiwalker-usgs or if not, let me know how.

@jiwalker-usgs check this out, the link is fixed and mustaches are updated

Looks good, we might have to play with spaces a bit.

authors: eread-usgs jiwalker-usgs

repo: USGS-VIZLAB/great-lakes-microplastics


text:
29 refactor pipeline

Not yet ready for review but creating Draft PR for #29 to document progress and allow collaboration.

4_reports

Added another step - 4_reports where we can add markdown targets
NOTE: for some reason, rmarkdown::render() can only render a .Rmd to html if the .Rmd lives in the root folder of the wd. As such, you'll find all .Rmd in root dir, but the .html print to 4_reports/out/ (if someone has a fix for this, I'd love to hear it!)

In this gitlab repo we are storing a qmd in the 3_visualize/out folder that is used to render a ppt. I would think this should operate similarly, but not tested. In that example we are also not taking full advantage of pipeline/qmd/html integration options to allow it to be easier to modify at this time, which may also make it less relevant.

authors: ceenell msleckman

repo: USGS-VIZLAB/saline-lakes


text:
Make map ingestion interface respect Dark Mode

Since Macrostrat has a dark mode, it is important that the map ingestion interface respect that. This should just be simple style tweaks and using CSS variables instead of hard-coded colors.
If this is too hard, we can talk about making sure the page "opts out" of dark mode styles (set at the application level) somehow. But I'd prefer the fixes just be made.

This has now been largely addressed.

repo: UW-Macrostrat/web


text:
Vite compilation

This pull request, which is mostly complete, swaps Vite for Webpack as the compilation engine for the frontend, addressing #83. It is an important part of our plan going forwards towards server rendering (#73).

The vite-compiled codebase is now up and running on the Macrostrat development server (https://dev.macrostrat.org/map). This PR is therefore ready to merge into develop.


text:
Data analytics

Setup some basic data analytics for most requested info such as peak times, units with the most enquiries, etc.

More information for this issue is needed, and the possibility of splitting this to more separate issues

Do we need this feature? As per #47, if we are doing this feature, then it only makes sense to do data analytics on the exported attributes.
In some extent, this becomes a nice-2-haves now, because excel will be a more powerful tool for analytics on the exported data, rather than us implementing the feature in the web application itself

I agree. Now that the client has specified he would like to export the data, we should focus on increasing functionality for that, rather then implementing simplistic analytics ourselves

The recent response from the client stated that it's good to have a week-to-week analysis. Two main requests from the client are:

Having day comparisons (the number of sessions on different weekdays)
Amount of sessions for different units during the week (to identify emerging units). For this one, maybe we generate the top 5 units, then the rest will be put in a column called 'Others'?

Baseline implementation finished in #77

authors: Alexkszzz TheOneHoff frinzekt


text:
🛑 PartDB is down

In cfbd3e7, PartDB (https://online.huskysatellitelab.com/partdb) was down:

HTTP code: 0
Response time: 0 ms

Resolved: PartDB is back up in aadae93.

repo: UWCubeSat/selfhosted-upptime


text:
[Getting Familiar][Core] Change default behavior to use --noCropping flag

The --noCropping flag is particularly annoying to new users who have scanned images(as opposed to mobile camera).
Steps

Understand how CLI args are parsed in OMRChecker
Change --noCropping flag into --enableCropping with default value as false
Update Readme as well as Wiki documentation reflecting above change.

Currently we have this as the CLI documentation, which is often confused with by new users. We can simplify it and improve the CLI experience with above simple change.
It has been repeatedly asked as a query on discord. So this is a high impact, low effort task up for grabs :)

https://discord.com/channels/590134763784896514/590134763784896520/1023997697637765130
https://discord.com/channels/590134763784896514/590134763784896520/1006898626120908931
https://discord.com/channels/590134763784896514/590134763784896520/908613137366913046

Note: this issue is marked with the hacktoberfest label. Follow #hacktoberfest-discussions on Discord for further details .

This issue is now fixed by #46 as this flag is deprecated and its configuration is moved to template.json


text:
pretrained model and test code

Could you upload your pretrained model and test code?

Okay I'll upload my latest model. But I am not sure this is well - fitted or not.
I am testing my models by using some metrics like Precision-Recall.

since my model file is too big(>25MB) to upload on github, I'll link the download link.
https://drive.google.com/file/d/109a0hLftRZ5at5hwpteRfO1A6xLzf8Na/view?usp=sharing

Thank you very much. Would it be possible for you to provide the testing results of PiCANet ?

I found that my PiCANet implementation makes little bit worse performance than the PiCANet paper, but if you want the testing results, I'll upload them soon. And also, I am going to implement some code to check the attention map. Thank you for your interest.

Now you can test PiCANet model by using Image_Test.py. You can see the result by using tensorboard. If you are not familiar with tensorboard, I will add file output code. And also I am trying to make guideline and some execution commands by using argument parsing. But I have to study argparse module because I haven't use that. So it may take time. Sorry for that.
If you run Image_Test.py or some other codes with pretrained model, You would see SourceChangeWarning. But you can just ignore the warning. That warning came from changing PiCANet's forward code(added Test mode). It will not make any error.

I updated Readme.md and uploaded Execution Guidelines.
But It is based on my programming environment. So it would not work. If it does not work, feel free to make an issue or mail to me.
wogns98@kaist.ac.kr
And also, if you downloaded the model file, please download it again. I modified save and load code a little, and old version of model file would not work with the code.

Would you mind to report your reimplement performance score?

No, it's okay. I measured my model's performance by F-score (precision recall), and the result was 0.7865.
with 25epo_210000step.ckpt. It is worse than Paper's one. If you want to know my model's performance with other metrics, please give me some suggestion. I'll try them. And please let me know if there is any wrong implementation in my model or performance metric.

Detailed performance score : (F-score with beta_square = 0.3)
Step | Value
-- | --
10000 | 0.710664
20000 | 0.75468
30000 | 0.742792
40000 | 0.769039
50000 | 0.773668
60000 | 0.771476
70000 | 0.783399
80000 | 0.755955
90000 | 0.759409
110000 | 0.751761
120000 | 0.682074
130000 | 0.740484
140000 | 0.736662
150000 | 0.75439
160000 | 0.717181
170000 | 0.737753
180000 | 0.723462
190000 | 0.780328
200000 | 0.725279
210000 | 0.786514

authors: Junjun2016 Ugness githubBingoChen

repo: Ugness/PiCANet-Implementation


text:
Assets

I'm uploading the assets here to keep the repository weight down.

User Icon:

Twitter Icon:

Google Icon:

Plus Icon:

Play Icon:

Logo Platzi Video:

Logo Platzi Video BW2:

Logo Platzi Video:

Nice

Privacy Favicon:

More Cool Privacy Favicon:

Sing In and Register Favicon:

Terms and conditions Favicon:

Video Favicon:

Cool Favicon:

Icons made by Freepik from www.flaticon.com

Platzi Wall:

repo: UltiRequiem/PlatziVideo


text:
MonteCarlo buggy

it doesnt work bruh what

nvm sahi hogaya it was pygame issue

repo: UltimaCodes/PythonProjects


text:
Linux: Text ist in Buttons teilweise zu lang

Beispiel: exportmanager, Export Video Audiogram

Video aus dem Buttontext rausnehmen, dann sollte es eigentlich passen. Falls nicht, ist an der verwendeten Gui-Lib noch was braun und müsste @rstockm mal kucken.

authors: fernsehmuell mespotine

repo: Ultraschall/ultraschall-portable


text:
🛑 Junior Association RNJA is down

In 4bd00bc, Junior Association RNJA (https://juniorassociation.org/) was down:

HTTP code: 500
Response time: 639 ms

Resolved: Junior Association RNJA is back up in f2b50c5 after 8 minutes.

repo: UnSeulT/upptime


text:
Fixe : issue #211

Related Issue
Events links were not working and not there .
Closes: #211
Describe the changes you've made
I added the events link . So when somebody click on the event it will redirect the user to the Event official page.
Type of change
What sort of change have you made:

[x] Bug fix (non-breaking change which fixes an issue)
[ ] New feature (non-breaking change which adds functionality)
[ ] Code style update (formatting, local variables)
[ ] Breaking change (fix or feature that would cause existing functionality to not work as expected)
[ ] Documentation update.
[ ] This change requires a documentation update

How Has This Been Tested?

Checklist

[x] My code follows the guidelines of this project.
[x] I have performed a self-review of my own code.
[ ] I have commented on my code, particularly wherever it was hard to understand.
[ ] I have made corresponding changes to the documentation.
[x] My changes generate no new warnings.
[x] I have added tests that prove my fix is effective or that my feature works.
[ ] Any dependent changes have been merged and published in downstream modules.

Screenshots (if applicable)

Original
Updated

https://github.com/UniKonf/vibey/assets/85991449/bff0dec5-72fb-4806-9589-d5a74e7f04a1
|
https://github.com/UniKonf/vibey/assets/85991449/c7cfa2c8-801f-4ae4-a22d-f7e9fcbdfc0a
|
Code of Conduct

[x] I agree to follow this project's Code of Conduct

@Deepu178 can you please give me label and level.

@parthpathakpp1 Thanks for making the contribution to Vibey and hope you make more substantial contribution to the project.

My Pleasure <3

repo: UniKonf/vibey


text:
Check version of netcdf.h and library to ensure they match

I am breaking this discussion out of #864 so that it can be evaluated on its own merits (or lack of merit).
It has been proposed that we add a check at run-time to ensure that the version of the netcdf.h file matches the version of the library being used.
This checking is also done by HDF5.
The version check is proposed to be accomplished by making nc_open/nc_create into macros, which will call the real nc_open/nc_create with an added version parameter. This is explained well by @gsjaardema in #864.
@opoplawski objects to this feature. I invite him to list his reasons in this issue.
@gsjaardema uses a similar feature in his own exodus package. He thinks it saves hours of debugging when researchers get confused about what header file to use and what is in their LD_LIBRARY_PATH. Given the way that most supercomputers try and abstract the LD_LIBRARY_PATH from the users (instead of just explaining it), I can understand how this kind of confusion would arise.
It has been proposed that this feature is a necessary requirement for changing the mode flag size, however that is less clear. Changing the API in any way is correctly handled by shared library builds, as long as we upgrade the so number correctly. However, if we are to have such a version check, I am happy to implement it before attempting to change the size of the mode field.

The only thing this defends against is LD_PRELOAD loading the wrong soname. Please don't do this as it's extremely inconvenient for Linux distributions and does not solve any known problem.

@DennisHeimbigner comments in #864 that the HDF5 error checking has caught error mismatches for him several times. I agree, that has also happened to me.
As alluded by @gsjaardema HPC systems often do not give users much visibility into the LD_LIBRARY_PATH. Users just load the netcdf module and the system sets something in LD_LIBRARY_PATH. Meanwhile, they use a netcdf.h that they find, and it may or may not be correct. That is the reason for the check in HDF5.
So @eli-schwartz can I ask you to elaborate on why this makes it extremely inconvenient for Linux distributions?

For completeness, let me propose this:
The idea is to provide e.g. nc_open32 and nc_open64 (or whatever names)
as well as the original nc_open. We can then do the following:

#define nc_open nc_open64
Build a special .c file that has #undef nc_open
and provides this code:
int nc_open(...) {return nc_open32(...);}

This means that any time code is recompiled with the new netcdf header
containing the #define will translate to a call to nc_open64.
Whereas any old code that uses the new library will call a version of
nc_open that then calls nc_open32 as expected.
Anyone see a flaw in this (aside from it being ugly)?

Soname versioning work for every other piece of software known to mankind in all of computing history...
This is inconvenient for Linux distributions, for the same reason it is inconvenient for regular users. It means that rather than trusting the declared compatibility versioning, you hard abort based on a completely different, unrelated versioning system, which isn't incompatible.
The major.minor.patchlevel version for hdf5 is a superset of the times when actual ABI compatibility has been broken. It includes all soname changes, plus many more changes as well.
However, due to the use of hard aborts based on this entirely misplaced runtime check, the soname simply doesn't matter in the slightest, and matching sonames which should work fine, nevertheless require completely recompiling the entire hdf5 stack without exception. Recompiling the world on every patchlevel release is pretty annoying, it requires involved, domain-specific knowledge to know when you cannot trust the soname versions, and it's difficult to check which software is compiled against a patchlevel release whereas there are trivial tools to check which soname something is compiled against.
Then you end up with situations where some Linux distributions decide they don't want to play monkey games, and they patch out the check like this: https://salsa.debian.org/debian-gis-team/hdf5/blob/master/debian/patches/relax-version-check.patch
(And they get the check wrong, but it doesn't matter because the only check that matters is the soname.)
If you don't trust sonames, why do you use them in the first place? If you do trust them but are worried about compile-time header mismatches, how does that translate to runtime checks, and either way, why not do compile-time checks against the thing which matters, that is, the ABI version also used by the soname?

I think the check has to be at runtime because I am assuming that it is possible to
run a client against more than one .so for a given library used by the client. Is this
last assumption false?

Yes it is possible, but that is exactly what soname versionning is for: forbid running against an incompatible library.
If a software is compiled against libnetcdf.so.5, it will not be able to run against libnetcdf.so.6 (unless you force it to using LD_PRELOAD). But libnetcdf.so.5 can be provided by e.g. version from 5.2.0 to 5.4.3, and then the .6 one starting with 5.5.0 until 6.0.0 for instance. The important point is to change it when the library is actually incompatible. Not when you release a new patch-level release fixing 3 or even 30 bugs. ;)

Comment for Ward: what has been our previous experience with bumping the
libnetcdf.so major version?
Several thoughts:

what kind of pushback do we get if we bump the .so major version number?
Has HDF5 routinely used a .so major version bump? It calls into question
why they do the header/library version check. Why was a .so bump not
sufficient?

If you have multiple versions of libhdf5.so being loaded by a single program, then you'll have multiple copies of the symbols, and the dynamic linker will hide some extra copies. IIRC it is an operating system implementation detail whether the first loaded or second loaded library wins.
Shortly after, your program will segfault or exhibit other signs of undefined behavior as it attempts to use symbols which it thinks are correct, in ways they were not meant to be used. This will happen regardless of your runtime checks, and in all probability, before you ever try running code containing runtime checks -- but we're dealing with undefined behavior here, so who knows?
This is not a sane environment to be working in. It's not an allowed environment. It happens when your application is correctly linked against two dependent libraries, and each is correctly linked against libhdf5, but wrongly linked against different versions of libhdf5. Is this something that is a serious concern to hdf5 or netcdf users? Is this something which is even allowed by the working environment of hdf5 or netcdf users? How do you end up linking your application to multiple different hdf5-using dependencies acquired from multiple incompatible locations that all still exist?
I would not want to rely on a runtime check to catch this.
If that is the concern, then the hdf5 version checking code being held up as an example is wrong. It emits a fatal error claiming that the headers don't match the library, and you should recompile the application... but as far as I can tell, depending on which library was loaded first, the code which loads the data will work fine, but the code which processes it will silently load incompatible symbols and do who-knows-what to your data without the warnings being effective at all.
...
This goes far beyond mismatched headers.

As mentioned in https://github.com/Unidata/netcdf-c/issues/864#issuecomment-441465031
The use of symbol versioning would allow you to build part of your application against one version of hdf5 or netcdf, and part of your application against another version, and your application would still work.

@dennisheimbigner I’m still on thanksgiving travels so will weigh in more fully later. The soversioning is completely separate from the library versioning, and there are rigid rules for how major.minor.revision are incremented. I’ll post the link when Inhave the chance.

Also, we need to have a solution that works on Windows, OSX, and Cygwin.

@eli-schwartz OK, I get your point. Checking versions in this way breaks one of the key features of shared libraries. We don't want to do that.

Looks like eli gave all the arguments I would.  Use the proper tool for the job.  The hdf5 version check has been a pain in my side for the last 13 years that I've maintained the hdf5 package in Fedora.  The thought of netcdf taking it up as well is just too much to bear.

So why did the HDF5 group do it? They must have had a specific reason for using
header version as opposed to .so version? Has anyone ever seen an explanation
from them?

Maybe back in 90s it seemed like a good idea.  If you are not doing proper API/ABI management it may seem like a reasonable thing to do.  But with the availability of modern tools it is completely the wrong thing to do.

OK, seems like the consensus is that this is not a good idea, because it makes shared libraries much less effective.
I will close this ticket.

Answer from hdfgroup:Hi Dennis,
I don't know why this was done to begin with.
I went through the bug reports for it. It looks like we intend to fix
the issue,  but it is not currently assigned to be fixed in a specific
release. If I find out more I will let you know.
-Barbara
Barbara Jones, The HDF Group Helpdesk, help@hdfgroup.org
Support Services:  https://www.hdfgroup.org/solutions/
On Mon, 26 Nov 2018, Dennis Heimbigner wrote:

The netcdf group at Unidata was looking at the header version checking
that is done by the HDF5 library to ensure compatibility between the header
used by client code and the API provided by the HDF5 library.
The question we have is: why did you do this rather than rely on the shared
library
major version number mechanism? Is the rationale behind the header version
checking documented anywhere?
=Dennis Heimbigner
Unidata

--

OK, well I guess that drives a stake through the heart of this idea. ;-)

authors: ArchangeGabriel DennisHeimbigner WardF edhartnett eli-schwartz opoplawski

repo: Unidata/netcdf-c


text:
Core tests

We should begin tracking code coverage for the core package and try to push the coverage above 95%.

Closing in favor of #158

repo: Unirep/Unirep


text:
Improve assemble models constructing in fuzzer

Description
Consider generating Spring integration tests for spring-boot-testing project method OrderService.save
The following test is generated:
@Test(description = "createOrder: order = Order()")
    public void testCreateOrder() {
        // begin repository fill up
        Order order = new Order();
        order.setPrice(Double.NEGATIVE_INFINITY);
        order.setQty(Integer.MIN_VALUE);

       <...>
        assertEquals(expected, actual);
    }

Expected behavior
Assemble model is created, so the following code is generated:
Order order = new Order(Double.NEGATIVE_INFINITY, Integer.MIN_VALUE);

Context
It seems that the problem is in Lombok specific of project under test.

Lombok doesn't generate two argument constructor, so here we can only use all argument constructor explicitly setting default values new Order(0L, null, Double.NEGATIVE_INFINITY, Integer.MIN_VALUE);

Debugged, all models are actually correct.

authors: EgorkaKulikov IlyaMuravjov

repo: UnitTestBot/UTBotJava


text:
Baking at runtime ignores the 'Include Layers' property.

When i bake a navmesh at runtime it appears to ignore the 'Include Layers' property in the navmeshsurface component. This creates an unusable navmesh as it goes around the agents. When baking the navmesh offline using the 'Bake' button on the surface component it works as expected.
Offline bake:

Runtime bake:

using System.Collections;
using System.Collections.Generic;
using UnityEngine;
using UnityEngine.AI;

public class NavigationManager : MonoBehaviour
{
    public NavMeshSurface surface;

    public void Rebake()
    {
        if (surface)
        {
            surface.BuildNavMesh();
        }
    }
}

Any feedback on this?

Any luck here? I'm having the same issue

I could not reproduce the issue with Unity 2019.4.18f1. The NavMes is baked correctly taking into account the layers. I've tested with this code.
using UnityEngine;
using UnityEngine.AI;

public class BuildNavMeshAtRuntime : MonoBehaviour
{
    NavMeshSurface m_Surface;

    void Start()
    {
        m_Surface = GetComponent<NavMeshSurface>();
    }

    void Update()
    {
        if (m_Surface && Time.frameCount % 200 == 0)
        {
            m_Surface.defaultArea = 2 + (m_Surface.defaultArea + 1) % 28;
            m_Surface.BuildNavMesh();
        }
    }
}

https://user-images.githubusercontent.com/9038468/106135697-8f15dd80-6168-11eb-8f78-557268a1d76b.mp4

I could not reproduce the issue with Unity 2019.4.18f1. The NavMes is baked correctly taking into account the layers. I've tested with this code.
using UnityEngine;
using UnityEngine.AI;

public class BuildNavMeshAtRuntime : MonoBehaviour
{
    NavMeshSurface m_Surface;

    void Start()
    {
        m_Surface = GetComponent<NavMeshSurface>();
    }

    void Update()
    {
        if (m_Surface && Time.frameCount % 200 == 0)
        {
            m_Surface.defaultArea = 2 + (m_Surface.defaultArea + 1) % 28;
            m_Surface.BuildNavMesh();
        }
    }
}

https://user-images.githubusercontent.com/9038468/106135697-8f15dd80-6168-11eb-8f78-557268a1d76b.mp4

authors: jesse-scam samsamm777 turadr

repo: Unity-Technologies/NavMeshComponents


text:
Fix msc old -> new transfer fakaps showing wrongly in sis

010947593

in oodi has been in old msc from 2013 to 2020, then transferred to new msc with studyright until end of 2021
in sis shows only old msc with studyright until 2020
these are both in same studyright element array in oodi, so probably oodi fakap?

looks like ok now regarding new msc programme

repo: UniversityOfHelsinkiCS/oodikone


text:
Navbar layout shifting issue

The navbar link texts are shifting like a *******
https://github.com/user-attachments/assets/a6085466-0f79-43b4-b4ea-33af7d1b7389

Hey @HRemonen I am very keen to work on this issue. I would be really happy if you could assign this issue to me.

repo: UniversityOfHelsinkiCS/palaute


text:
Issue# 13

https://github.com/Unleash/unleash-spring-boot-starter/issues/13 Update pom.xml to point to Unleash repo

Update pom.xml to point to Unleash repo instead of personal repo
Currently scm/connection, scm/developerConnection and scm/url all points to a personal repo.
This needs to be updated to point to Unleash repo
About the changes

Closes #13

Important files

/pom.xml
Discussion points

@thomasheartman How do I make a release of the first version? I have done releases from my personal repo, not sure how I do it from this repo.

That's ... a very good question. How did you do it from your personal repo? Regardless, I feel like @chriswk is probably the one with the most knowledge about java release processes around.
by the way, is there a reason you haven't merged this yet? You've got the required access rights, right?

@praveenpg , did you get anywhere on the releases? We got a user asking about releases in a discussion the other day, so the work you're doing definitely serves some needs 😄

@thomasheartman As I had mentioned earlier, I am not sure how do I make a release from the Unleash repo. I have done from my personal repo.

authors: praveenpg thomasheartman

repo: Unleash/unleash-spring-boot-starter


text:
feat/GPU acceleration with tessract

Is your feature request related to a problem? Please describe.
Enable the ability to toggle GPU acceleration, which is already built into Tessract.  It would be ideal if we could also enable Yolox models.

UPP!!!

On the Yolox models, see #2506. If Tesseract has built in GPU support already I think we ought to be able to add a toggle for that.

There is not much perf. gain with tesseract on GPU vs. CPU.

There is not much perf. gain with tesseract on GPU vs. CPU.

You should focus on overall processing to be significant too like optimizing using many recognition instances in parallel.

authors: MthwRobinson RobertHH-IS cragwolfe muazhari

repo: Unstructured-IO/unstructured


text:
Unable to parse single-column csv files

Describe the bug
Given a single column csv file (see one example as attached), it fails to parse it because of the failure of determining the delimiter.
See https://github.com/Unstructured-IO/unstructured/blob/4096a38371bae062832b976dc7ebff4184b7991f/unstructured/partition/csv.py#L109 for where the issue is.
To Reproduce
Use the file attach to be parsed.
Expected behavior
It should be parsed successfully and treated as a single-column spreadsheet.
Screenshots
If applicable, add screenshots to help explain your problem.
Environment Info
unstructured.io 0.11.8
Python 3.10
Additional context
Here's a 16yo Python bug that's relevant to the sniff function used here for the expected behaviour, https://bugs.python.org/issue2078:
test_single_column.csv

Thanks @cwang - will take a look as soon as we are able

just ran into this today. seems like a pretty simple fix; just need to catch the error on invocation of get_delimiter and conditionally skip passing the sep argument on failure. happy to create a pr for this if that's preferable.

@cbrendanprice can you post the full stack trace?

sure. im also creating a pr for this presently. let me know if i should stop.
Traceback (most recent call last):
  File "/home/notebook-user/.local/lib/python3.11/site-packages/uvicorn/protocols/http/httptools_impl.py", line 399, in run_asgi
    result = await app(  # type: ignore[func-returns-value]
             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/home/notebook-user/.local/lib/python3.11/site-packages/uvicorn/middleware/proxy_headers.py", line 70, in __call__
    return await self.app(scope, receive, send)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/home/notebook-user/.local/lib/python3.11/site-packages/fastapi/applications.py", line 1054, in __call__
    await super().__call__(scope, receive, send)
  File "/home/notebook-user/.local/lib/python3.11/site-packages/starlette/applications.py", line 123, in __call__
    await self.middleware_stack(scope, receive, send)
  File "/home/notebook-user/.local/lib/python3.11/site-packages/starlette/middleware/errors.py", line 186, in __call__
    raise exc
  File "/home/notebook-user/.local/lib/python3.11/site-packages/starlette/middleware/errors.py", line 164, in __call__
    await self.app(scope, receive, _send)
  File "/home/notebook-user/.local/lib/python3.11/site-packages/starlette/middleware/exceptions.py", line 65, in __call__
    await wrap_app_handling_exceptions(self.app, conn)(scope, receive, send)
  File "/home/notebook-user/.local/lib/python3.11/site-packages/starlette/_exception_handler.py", line 64, in wrapped_app
    raise exc
  File "/home/notebook-user/.local/lib/python3.11/site-packages/starlette/_exception_handler.py", line 53, in wrapped_app
    await app(scope, receive, sender)
  File "/home/notebook-user/.local/lib/python3.11/site-packages/starlette/routing.py", line 756, in __call__
    await self.middleware_stack(scope, receive, send)
  File "/home/notebook-user/.local/lib/python3.11/site-packages/starlette/routing.py", line 776, in app
    await route.handle(scope, receive, send)
  File "/home/notebook-user/.local/lib/python3.11/site-packages/starlette/routing.py", line 297, in handle
    await self.app(scope, receive, send)
  File "/home/notebook-user/.local/lib/python3.11/site-packages/starlette/routing.py", line 77, in app
    await wrap_app_handling_exceptions(app, request)(scope, receive, send)
  File "/home/notebook-user/.local/lib/python3.11/site-packages/starlette/_exception_handler.py", line 64, in wrapped_app
    raise exc
  File "/home/notebook-user/.local/lib/python3.11/site-packages/starlette/_exception_handler.py", line 53, in wrapped_app
    await app(scope, receive, sender)
  File "/home/notebook-user/.local/lib/python3.11/site-packages/starlette/routing.py", line 72, in app
    response = await func(request)
               ^^^^^^^^^^^^^^^^^^^
  File "/home/notebook-user/.local/lib/python3.11/site-packages/fastapi/routing.py", line 278, in app
    raw_response = await run_endpoint_function(
                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/home/notebook-user/.local/lib/python3.11/site-packages/fastapi/routing.py", line 193, in run_endpoint_function
    return await run_in_threadpool(dependant.call, **values)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/home/notebook-user/.local/lib/python3.11/site-packages/starlette/concurrency.py", line 42, in run_in_threadpool
    return await anyio.to_thread.run_sync(func, *args)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/home/notebook-user/.local/lib/python3.11/site-packages/anyio/to_thread.py", line 56, in run_sync
    return await get_async_backend().run_sync_in_worker_thread(
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/home/notebook-user/.local/lib/python3.11/site-packages/anyio/_backends/_asyncio.py", line 2177, in run_sync_in_worker_thread
    return await future
           ^^^^^^^^^^^^
  File "/home/notebook-user/.local/lib/python3.11/site-packages/anyio/_backends/_asyncio.py", line 859, in run
    result = context.run(func, *args)
             ^^^^^^^^^^^^^^^^^^^^^^^^
  File "/home/notebook-user/prepline_general/api/general.py", line 786, in general_partition
    list(response_generator(is_multipart=False))[0]
    ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/home/notebook-user/prepline_general/api/general.py", line 721, in response_generator
    response = pipeline_api(
               ^^^^^^^^^^^^^
  File "/home/notebook-user/prepline_general/api/general.py", line 420, in pipeline_api
    elements = partition(**partition_kwargs)  # type: ignore # pyright: ignore[reportGeneralTypeIssues]
               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/home/notebook-user/.local/lib/python3.11/site-packages/unstructured/partition/auto.py", line 307, in partition
    elements = _partition_csv(
               ^^^^^^^^^^^^^^^
  File "/home/notebook-user/.local/lib/python3.11/site-packages/unstructured/documents/elements.py", line 593, in wrapper
    elements = func(*args, **kwargs)
               ^^^^^^^^^^^^^^^^^^^^^
  File "/home/notebook-user/.local/lib/python3.11/site-packages/unstructured/file_utils/filetype.py", line 429, in wrapper
    elements = func(*args, **kwargs)
               ^^^^^^^^^^^^^^^^^^^^^
  File "/home/notebook-user/.local/lib/python3.11/site-packages/unstructured/file_utils/filetype.py", line 385, in wrapper
    elements = func(*args, **kwargs)
               ^^^^^^^^^^^^^^^^^^^^^
  File "/home/notebook-user/.local/lib/python3.11/site-packages/unstructured/chunking/dispatch.py", line 74, in wrapper
    elements = func(*args, **kwargs)
               ^^^^^^^^^^^^^^^^^^^^^
  File "/home/notebook-user/.local/lib/python3.11/site-packages/unstructured/partition/csv.py", line 90, in partition_csv
    delimiter = get_delimiter(file=f)
                ^^^^^^^^^^^^^^^^^^^^^
  File "/home/notebook-user/.local/lib/python3.11/site-packages/unstructured/partition/csv.py", line 134, in get_delimiter
    return sniffer.sniff(data, delimiters=",;").delimiter
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/usr/lib/python3.11/csv.py", line 187, in sniff
    raise Error("Could not determine delimiter")
_csv.Error: Could not determine delimiter

@cbrendanprice Ah, okay, I see what you mean now.
A quick PR would be helpful. I'm interested whether Pandas can parse single-column CSV, so if you could prove out your idea that would be a help. You'd need to add a test case that currently fails, I expect that means adding a single-column.csv file to /example-docs.
I think what you're proposing is that on _csv.Error we assume sep=",". I believe Pandas will produce the same error if sep=None.

done! and accounted for all of what you mentioned here in my own tests. you are correct in that pandas fails on passing a sep of None, so i decided to simply omit the separator altgother, which in my testing results in a pandas correctly/successfully reading the csv. just posted my pr for this.

authors: MthwRobinson cbrendanprice cwang scanny


text:
Support for Prebuilt frameworks to use with Carthage

It would be nice if for each tagged release you enabled pre built frameworks also - this would enable Carthage users to have faster build times.
See https://github.com/Carthage/Carthage#archive-prebuilt-frameworks-into-one-zip-file for details on how to implement this. (it's pretty easy)

I am not a Carthage user, but if you would like to package them up, test it, and submit a pull request, I would take a look and see about merging into master.

Not much code to add I built these from the head of the master - but I think this is close to the 0.1.1 release.

I'm closing this issue, it all seems 👍🏼.

authors: coneybeare johnnye

repo: UrbanApps/Armchair


text:
Angular-cli not found file system.config.js

I use lastest version of angular-cli. And i can't find system.config.js. Please explain how i config it?

Have you followed the beginners guide at Angular2's home page: https://angular.io/docs/ts/latest/quickstart.html? They instruct you how to create your system.config.js file. And then you modify it with the instructions found on this repository.

The lastest angular-cli no have system.config.js. But i did it with a different way. tks

Hi. Sorry I haven't been around for a while. I was able to use the module with angular-cli by adding it to angular-cli.json and using the relative path for the import statement in app.module.ts instead of the SystemJS alias. I've updated the readme with the details.

it package very good, but after install it, my component will lag and slowly when type text to a input in component, and i remove it :(

I guess that might be to do with your other issue with ngFor? I will have a look to see if I can find any way of improving the performance.

i use observable, ngFor(but it just have one element in observable), and use pipe to bind trust html(my content include all code highlight in observable or normal text, if i have multi statement(>2) code tag, it will slowly and lag). I use service to show highlight auto.
Waiting for you fix it :)

Maybe this is related to #4?

authors: JayChase johnedvard lozthiensu


text:
[1pt] Create basic structure for Missions - Setup

Create a route and a view component. Use <NavLink /> for the page navigation links and style active class to indicate which section/page the user is currently on (underline active navigation link).
Create a directory for all Redux state slice files.

This task has been completed:
👉 Pull Request

repo: Uzair-Manzoor/react-capstone


text:
Allow changing type of input

This would be the exact same as https://github.com/shaack/bootstrap-input-spinner/pull/32 , but this would add a custom style to the input if it is a number like so : https://css-tricks.com/snippets/css/turn-off-number-input-spinners/

As I reread the issue linked above, I realized the twisties is not the only problem : there is also some formatting issues with other locales...
I'll see what I can do, but I still plan to implement it, and add a disclaimer that this specific feature may not work with all locales and to keep that in mind when using other features (such as locale and separators)

Simply adding inputmode="numeric" should be enough to provide this behavior (a spinner is by definition a number input) : https://github.com/shaack/bootstrap-input-spinner/pull/32#issuecomment-554076843

repo: V-ed/bootstrap-input-spinner


text:
Extra Slash in URL

Kindly refer to the below code snippet.
Can you please help me where I am going wrong.
An extra slash is getting added after json.
Seems to be generating a URL like below.
/maps/api/distancematrix/json/?origins=Tabazco+Stora+Gatan+36B+V%C4STER%C5S+722+12&destinations=Puls+Slottsgatan+118+NORRK%D6PING+602+20&units=metric
There is an extra slash added after json. Can you please help  figure out where I am doing a mistake.
'Call the distance API to get the distance
GoogleClient.BaseUrl = "https://maps.googleapis.com/maps/api/distancematrix/"
GoogleRequest.Resource = "json"
GoogleRequest.Method = WebMethod.HttpGet
GoogleRequest.RequestFormat = WebFormat.FormUrlEncoded
GoogleRequest.ResponseFormat = WebFormat.Json
GoogleRequest.AddQuerystringParam "origins", OriginAddress
GoogleRequest.AddQuerystringParam "destinations", DestinationAddress
GoogleRequest.AddQuerystringParam "units", "metric"
GoogleRequest.AddQuerystringParam "key", AccessKey

I gave this a whirl:
Public Sub TestExtraSlash()

Dim GoogleClient As New WebClient
Dim GoogleRequest As New WebRequest
GoogleClient.BaseUrl = "https://maps.googleapis.com/maps/api/distancematrix/"
GoogleRequest.Resource = "json"
GoogleRequest.Method = WebMethod.HttpGet
GoogleRequest.RequestFormat = WebFormat.FormUrlEncoded
GoogleRequest.ResponseFormat = WebFormat.Json
GoogleRequest.AddQuerystringParam "origins", OriginAddress
GoogleRequest.AddQuerystringParam "destinations", DestinationAddress
GoogleRequest.AddQuerystringParam "units", "metric"
GoogleRequest.AddQuerystringParam "key", AccessKey

Debug.Print GoogleClient.GetFullUrl(GoogleRequest)

End Sub

and I get
https://maps.googleapis.com/maps/api/distancematrix/json?origins=&destinations=&units=metric&key=
I even tried Debug.Print GoogleClient.PrepareCurlRequest(GoogleRequest) in case you were on a Mac and I see:
curl -i --connect-timeout 5 --max-time 15 --location -H 'User-Agent: VBA-Web v4.1.1 (https://github.com/VBA-tools/VBA-Web)' -H 'Content-Type: application/x-www-form-urlencoded;charset=UTF-8' -H 'Accept: application/json' -H 'Content-Length: 0' -X GET -d '' 'https://maps.googleapis.com/maps/api/distancematrix/json?origins=&destinations=&units=metric&key='

The problem seems to  be with the  URL coding for Swedish Language. It is possible that I am doing something wrong. Thanks for your patience.
Sub GetTimeAndDistance(ByVal FromPlaceNumber As Long, ByVal ToPlaceNumber As Long)
Dim GoogleClient As New WebClient
Dim GoogleRequest As New WebRequest
Dim GoogleResponse As WebResponse
Dim AccessKey As String
Dim OriginAddress As String
Dim OriginAddressRowNumber As Long
Dim RangeFound As Range
Dim RowInResponse As Dictionary
Dim DestinationAddress As String
Dim DestinationAddressRowNumber As Long

Dim DistanceValue As Long
Dim TimeValue As Long

AccessKey = ThisWorkbook.Worksheets("Setup").Range("C4").Value

'**** Code to populate Originaddress and Destination Address
'Call the distance API to get the distance
GoogleClient.BaseUrl = "https://maps.googleapis.com/maps/api/distancematrix/"
GoogleRequest.Resource = "json"
GoogleRequest.Method = WebMethod.HttpGet
GoogleRequest.RequestFormat = WebFormat.FormUrlEncoded
GoogleRequest.ResponseFormat = WebFormat.Json
GoogleRequest.AddQuerystringParam "origins", OriginAddress
GoogleRequest.AddQuerystringParam "destinations", DestinationAddress
GoogleRequest.AddQuerystringParam "units", "metric"
GoogleRequest.AddQuerystringParam "key", AccessKey
Set GoogleClient.Authenticator = Nothing

Debug.Print (OriginAddress)
Debug.Print (DestinationAddress)
Debug.Print ("")
Debug.Print GoogleClient.GetFullUrl(GoogleRequest)
Debug.Print ("")
Debug.Print GoogleClient.PrepareCurlRequest(GoogleRequest)

The immediate Window shows like this:
Tabazco Stora Gatan 36B VÄSTERÅS 722 12
Puls Slottsgatan 118 NORRKÖPING 602 20
https://maps.googleapis.com/maps/api/distancematrix/json?origins=Tabazco+Stora+Gatan+36B+V�STER�S+722+12&destinations=Puls+Slottsgatan+118+NORRK�PING+602+20&units=metric&key=AIzaSyA7B3crL6DM1LjGHNe72MwssdLL1xMMZz8
curl -i --connect-timeout 5 --max-time 15 --location -H 'User-Agent: VBA-Web v4.1.4 (https://github.com/VBA-tools/VBA-Web)' -H 'Content-Type: application/x-www-form-urlencoded;charset=UTF-8' -H 'Accept: application/json' -H 'Content-Length: 0' -X GET -d '' 'https://maps.googleapis.com/maps/api/distancematrix/json?origins=Tabazco+Stora+Gatan+36B+V�STER�S+722+12&destinations=Puls+Slottsgatan+118+NORRK�PING+602+20&units=metric&key=AIzaSyA7B3crL6DM1LjGHNe72MwssdLL1xMMZz8'
If I paste the URL on a web browser, I get the same error.
When I use let us say "Bangalore, India" and "Chennai, India" as source and destination address, I get the proper response.

Thanks for the additional details @sankarcn I'll look into it.

Summary... I used a urlconverter (Courtesy Tom) and it was working.

Tabazco Stora Gatan 36B VÄSTERÅS 722 12
In Web-Vba is converting to
Tabazco+Stora+Gatan+36B+V%C4STER%C5S+722+12
While another URL converter is converting to below and it works.
Tabazco+Stora+Gatan+36B+V%C3%84STER%C3%85S+722+12
The URL converted that I used is the first code shown in the answer for
https://stackoverflow.com/questions/218181/how-can-i-url-encode-a-string-in-excel-vba

authors: sankarcn timhall zgrose

repo: VBA-tools/VBA-Web


text:
Visualizations: Stronger indicators for zoomed visualizations

While discussing w the dataviz group how to clearly indicate when the Map viz was zoomed it was decided that we could implement the same for all vizs which would provide us consistency across vizs. Our suggestion is as follows:

add a yellow hazard symbol above any zoomed plot
Yellow zoom indicators within the plot grid of stats charts need a tooltip explaining what they are
map viz will not have yellow indicators on the map itself
confirmed birds eye bar and plot titles should not respond to zoom

IMO, this ticket should be in web-eda. The yellow warning symbol should be next to the 1,234,567 Households heading above the plot, which is firmly in EDA territory.

authors: bobular d-callan

repo: VEuPathDB/web-components


text:
Issue with totalVisualizationCount in map's "Plot" panel

Screenshot of issue:

A quick dig suggests that the analysisState's getVisualizations method, from which totalVisualizationCount is derived, is the culprit. It seems the method returns a default viz that isn't evident to the user in any way.

NOTE: This may very well be an issue with old map analyses made before recent big merges. I am unable to replicate this behavior when I make new analyses.

repo: VEuPathDB/web-monorepo