Loading http://localhost:8080/view/dataset/membranacea_dataset/cumulative?staticThreshold=Infinity&nohitThreshold=Infinity&plotGraphics=svg Run blobtools create with genomehubs/blobtoolkit:1.3.2 so --taxdump databases/ncbi_taxdump will work: Start up the Viewer with ports bound so you have the option of opening it up in a browser: Use docker exec to run blobtools view to get a snail plot: This will show an error when it tries to stop the viewer that is controlled by a different process bu this happens after the plot is generated so can be ignored: Alternatively omit the --host option and it will spin up a new viewer instance inside the container for this one command. (base) mac-amcdonnell-p:blobtools amcdonnell$ touch output/blank.hits.out Thanks so much again. Well occasionally send you account related emails. I have the file membranacea.contigs.fasta (almost 1.2 GB, so not empty) in /Users/amcdonnell/Analyses/blobtools/datasets, amcdonnell$ docker run -it --rm --name btk -u $UID:$groups -v /Users/amcdonnell/Analyses/blobtools/datasets:/blobtoolkit/datasets -v /Users/amcdonnell/Analyses/blobtools/membranacea.contigs.fasta:/blobtoolkit/data genomehubs/blobtoolkit:latest ./blobtools2/blobtools create --fasta /blobtoolkit/data/membranacea.contigs.fasta --taxid 1234 --taxdump taxdump /blobtoolkit/datasets/membranacea_dataset Thanks for letting me know about taxdump. Loading sequences from /blobtoolkit/data/membranacea.contigs.fasta Hey again! docker run -d --rm --name btk -p 8080:8080 -p 8000:8000 -v /Users/amcdonnell/Analyses/blobtools/datasets:/blobtoolkit/datasets -e VIEWER=true genomehubs/blobtoolkit:latest, output to screen You can get around this by passing an empty file to blobtools add, which will label everything as no-hit: The newer image (1.3.2) was pulled but I am still getting a taxdump error with the first command: docker run -it --rm --name btk -u $UID:$groups -v /Users/amcdonnell/Analyses/blobtools/datasets:/blobtoolkit/datasets -v /Users/amcdonnell/Analyses/blobtools/membranacea.contigs.tab.edited.fasta:/blobtoolkit/data genomehubs/blobtoolkit:latest ./blobtools2/blobtools create --fasta /blobtoolkit/datasets/membranacea.contigs.tab.edited.fasta --taxid 1234 --taxdump databases/ncbi_taxdump /blobtoolkit/datasets/membranacea_dataset. For an alternative that should get around this, you are on the right track with running. but I got error Here is what I'm doing and what I'm getting out. A backslash usually means a special character is next (like \n for Enter and \\ for \): @jennoi are you making a bridge/network between rasa and rasa-sdk (action server) while using --net ? Loading http://localhost:8080/view/dataset/membranacea_dataset/cumulative?staticThreshold=Infinity&nohitThreshold=Infinity&plotGraphics=svg I'm new to docker, so thanks for the explanation. Try using / or \\ instead of \. (and then nothing happens), When I attempt the cumulative plot: Are you getting the same error message? Tried using the quickstart code, but getting the error: Cant understand what Im doing wrong. to your account. So something like: docker run -it --rm --name n8n -p 5678:5678 -v C:/Users/Username/.n8n:/home/node/.n8n n8nio/n8n. File "/blobtoolkit/blobtools2/lib/fasta.py", line 77, in parse Parsing taxdump There's some notes on the new version in a github gist that may be useful. I tried running it a few different times with different paths, and the most successful try so far gave me a ModuleNotFoundError: No module named 'docopt': (base) mac-amcdonnell-p:~ amcdonnell$ docker run -it --rm --name btk -u $UID:$groups -v /Users/amcdonnell/Analyses/blobtools/datasets:/blobtoolkit/datasets -v /Users/amcdonnell/Analyses/blobtools/membranacea.contigs.fasta:/blobtoolkit/data genomehubs/blobtoolkit:latest ./blobtools2/blobtools create --fasta /blobtoolkit/data/membranacea.contigs.fasta --taxid 1234 --taxdump taxdump /blobtoolkit/datasets/membranacea_dataset Have a question about this project? waiting for element snail_save_png` I made some changes to the directory structure in the container and it looks like I forgot to update the path in the example command, the taxdump is available in the container at /blobtoolkit/databases/ncbi_taxdump so the command should contain. . I ran it with genomehubs/blobtoolkit:latest and got the error again. Docopt is installed and when I test the container it runs fine but on some systems it seems that there can be an issue with finding the package. to check that it is able to find the Viewer. Tried pulling down the latest version of n8n, seemed to do so successfully, though I dont know where its pulling to. I'll look it up, too but I wanted to update. OR you just running the docker on port 5005? Fetching membranacea_dataset.cumulative.png I'm having trouble working out where the problem is so I can't suggest an immediate fix. - processing tig00030305=37045=1suggestBubble=noCircular=no: : 2122it [00:55, 38.16it/s] Parsing taxdump ERROR: Unable to parse /blobtoolkit/databases/ncbi_taxdump/nodes.dmp. That's odd, the view command getting stuck at that point suggests it is not able to connect to the Viewer being hosted in the container. The new container can run the entire pipeline without creating additional conda environments (though including all the dependencies has made it rather large). Fetching datasets/membranacea_dataset.snail.png . As BlobToolKit runs inside the container, it can't see the external file paths so any files you refer to in the blobtools create command have to be relative to the container filesystem. Traceback (most recent call last): Does this part take a while? (should bee at the same level as the -u and -v options) I can try to find a more robust solution once I know if that works. After removing container, I ran: You can put whatever you want really just make sure it is a local path, I suspect the issue is where ~ is a shortcut on Mac / Linux systems for the current users home directory so assuming your windows logon name is BRPW the command below should just work. from docopt import docopt error is likely caused by a space in one of the - v flags so hopefully won't happen again with the suggested command above. Tried all lower-case. I can't reproduce that with the latest container versions (1.3.2 or a 1.3.3 version that I uploaded today) so I'm not sure what to suggest. ERR_EMPTY_RESPONSE"). Maybe I'm missing some code? It looks like it ran; it parsed all my contigs, but then I got this error: No problem! It's irritating! You signed in with another tab or window. I tried to run the blobtools view command in docker to see where you may have gone wrong but although I didn't hit the same error, I couldn't see any output files on my local filesystem even after the command appeared to run successfully so I'll need to debug that but am currently unsure where to start. I've rebuilt the container with updated dependencies so the latest container version is 1.3.1, if you still can't see anything with: Could you send me the results of ls -al /Users/amcdonnell/Analyses/blobtools/datasets and attach the output of docker logs btk and docker exec -it btk curl 'http://localhost:8080' so I can try to work out what is going wrong. 0it [00:00, ?it/s] This looks like a problem with the PYTHONPATH variable. Any help/guidance for a newby? ERROR: Unable to parse /blobtoolkit/databases/ncbi_taxdump/nodes.dmp. ERROR: 'identifiers.json' was not found in the BlobDir. I've not seen that error before so don't know what is causing it. The response should look like. Ok thanks. Hey Jon, I did not. Tried running your code; got the following response: This is after making the folder C:/Users/n8n/. Please explain me this above run command. docker: invalid reference format. I think I have some blast output somewhere, I will find it and try the cumulative plot again. Ah, looks like I'd missed out on adding the taxdump when rebuilding the Docker image with all the other dependencies inside. I just checked and the latest image tag was still pointing to 1.3.1 so the tax dump issue was still there. A waste of life! You could try viewing the plots interactively in a web browser outside the container if you bind ports for the API and client when starting the btk container, so: start the container again with bound ports: then view the plots in a browser by visiting http://localhost:8080/view#Datasets. . from docopt import docopt If you are running docker on a remote server, you can forward the ports over ssh by connecting with something like ssh -L 8080:localhost:8080 -L 8000:localhost:8000 username@remote_server, then you can connect as if it was running locally with the link above. This should give you access to the viewer from outside the Docker container so now instead of using docker exec to run blobtools view, you should be able to open a web browser on your local machine and visit http://localhost:8080/view/dataset/membranacea_dataset/cumulative to see the cumulative plot. Now I'm getting another error about an empty file. 8b3c47dbcaf798de734b8954496aa4c676e9e54a96b36a1bb268c446c6ad1fe9, then I ran this to make a plot I keep getting the error: Any suggestions on what I could do differently to get this software to run? docker run -it --rm --name n8n -p 5678:5678 -v ~/.n8n:/home/node/.n8n n8nio/n8n. Still beginning my journey into the world of code/programming. privacy statement. Hi again! 'range': [min(gc_portions), max(gc_portions)] I've retagged latest so it is now the most up to date, but if you use genomehubs/blobtoolkit:1.3.2 in your command instead of genomehubs/blobtoolkit:latest it will definitely use that version. I've updated the container image with the latest blob tools code and set an explicit PYTHONPATH so hopefully this will start working for you if you docker pull genomehubs/blobtoolkit:latest to get the most recent version. I'm trying to run blobtoolkit in a docker container locally by modifying your suggested code. Any chance you send over the full command you are running or DM it if you want. Good Luck! I updated the container and restarted analyses. Can you post the full command you are running? To confirm, is this the docker command you are running? $(pwd) present working directory on which you are working. ERROR: Unable to parse /blobtoolkit/taxdump/nodes.dmp. Still hasnt worked, Im afraid. I'm sorry if I keep making silly errors. Sorry to hear this still isn't working. `(base) mac-amcdonnell-p:blobtools amcdonnell$ docker exec -it btk \, Initializing viewer || 15/15 seconds Hi again, Trying to get n8n up and running with Docker Desktop for Windows. (base) mac-amcdonnell-p:blobtools amcdonnell$ docker exec -it btk ./blobtools2/blobtools view --host http://localhost:8080 --out output --view cumulative membranacea_dataset It looks like the tutorials may have been updated in the last few weeks, so I will take a look there for now. Traceback (most recent call last): The culprit: http://challenge.xfyun.cn/aicompetition/techDetail, Then replace it with the normal half-width symbol, Reference : https://blog.csdn.net/weixin_33856370/article/details/86130696, docker run --it --v/dataset:/dataset --v/inference:/inference --v/result:/result floydhub/pytorch:0.4.0-py2.29/inference/inference.sh. For clarity, I tried using my normal user folder (my full name with capitals), but got this: Try using your normal user folder but lowercase it all so maybe c:\users\ben\.n8n if that doesnt do it I can set up a Windows virtual machine and give it a quick bash and see what happens. waiting for element cumulative_save_png, (& the same thing happens for snail_save_png). I've updated the image (1.3.2) with the tax dump restored and tested a few commands that should hopefully help you get some plots out this time. Sorry if I wasn't very clear last time. Here's what I'm entering: I've tried editing the above in various ways including deleting the -u part (I suspect I don't need it, but I don't really know). ModuleNotFoundError: No module named 'docopt'. I've been running this through docker locally and still can't get any plots to appear, through any browser, even after following your above advice (I get this: "This page isn't working. I tried that, and get the same error any other suggestions? Traceback (most recent call last): ModuleNotFoundError: No module named 'docopt'. Loading sequences from /blobtoolkit/datasets/membranacea.contigs.tab.edited.fasta, Then I ran I'm now trying to generate plots and getting stopped by a "waiting for element cumulative_save_png" or "waiting for element snail_save_png" and I'm not sure what to do with it or how long to let it sit. docker run -it --rm --name n8n -p 5678:5678 -v C:/Users/brpw/.n8n:/home/node/.n8n n8nio/n8n. and taxid? Does that need to be corrected on your end or mine? I tried to run By default commands in the container run in a /blobtoolkit directory that already contains blobtools2, data and datasets subdirectories so it's easiest to bind to these. docker run -it -v D:\Program Files\RASA\myproject-2\rasa-x-waapi\myenv\Docker:/app -p 5005:5005 --net my-project-2 rasa/rasa:2.8.2 shell, Try folder names lowecase i.e. File "/blobtoolkit/blobtools2/lib/add.py", line 165, in Once Ive downloaded the official image from Docker (or pulled it using CMD), where would I find it? ValueError: min() arg is an empty sequence. Copied from the website, So this incident tells us that as a publisher, we must use. I figured out what was wrong and fixed it. By clicking Sign up for GitHub, you agree to our terms of service and File "./blobtools2/blobtools", line 48, in File "/blobtoolkit/blobtools2/lib/add.py", line 132, in main This step should run quite quickly so there is clearly something not working as expected. Will take slightly longer but won't hit the error above: Your create command doesn't include any BLAST hits so the cumulative plot won't work. then lots of tigs get processed, output to screen ends with: The notes swap between singularity and docker as it can run in either - let me know if you want any examples translated from one to the other. . (base) mac-amcdonnell-p:blobtools amcdonnell$ docker exec -it btk \. docker pull genomehubs/blobtoolkit:1.3.2 1.3.2: Pulling from genomehubs/blobtoolkit Digest: sha256:0a81055d1ba4fcdd918c549355419718abef00b8c4771d9cc87be17bfff91e02 Status: Image is up to date for genomehubs/blobtoolkit:1.3.2 docker.io/genomehubs/blobtoolkit:1.3.2. I hope mean clear to you and this will solve your issue asap. I got the taxdump error again: Is it a problem with my -v paths? It turned out to be. docker: Error response from daemon: Mounts denied: meta=meta) \Program \program, Powered by Discourse, best viewed with JavaScript enabled. Already on GitHub? action-link: you have created a network with the name my-project-2. Using this through Docker is just not intuitive to me, I think. Hey again. Could you try adding -e PYTHONPATH=/home/blobtoolkit/miniconda3/envs/btk_env/lib/python3.6/site-packages to your docker command and see if that helps? Powered by Discourse, best viewed with JavaScript enabled. waiting for element cumulative_save_png. I used the docker run command as above with both --taxdump taxdump and --taxdump databases/ncbi_taxdump. When I swapped in the 1.3.2 it worked! . Fetching membranacea_dataset.cumulative.png File "./blobtools2/blobtools", line 48, in ERROR: You may need to rebuild the BlobDir to run this command. localhost didn't send any data. docker exec -it btk ./blobtools2/blobtools view --host http://localhost:8080 --out output --view cumulative membranacea_dataset, output to screen, stays stuck here Loading http://localhost:8002/view/dataset/membranacea_dataset/snail?staticThreshold=Infinity&nohitThreshold=Infinity&plotGraphics=svg Really. See docker run --help. See https://docs.docker.com/docker-for-mac/osxfs/#namespaces for more info. I suspect there is probably a windows version of ~ maybe something like %HOME% or $HOME but it might be easier to just manually set a path and see what happens. So, when I try generate the snail plot using either method, I end up with the message "waiting for element snail_save_png". ok, it looks like that worked! docker run -it --rm --name btk -u $UID:$groups -v /Users/amcdonnell/Analyses/blobtools/datasets:/blobtoolkit/datasets -v /Users/amcdonnell/Analyses/blobtools/membranacea.contigs.tab.edited.fasta:/blobtoolkit/data genomehubs/blobtoolkit:latest ./blobtools2/blobtools create --fasta /blobtoolkit/datasets/membranacea.contigs.tab.edited.fasta --taxid 1234 --taxdump databases/ncbi_taxdump /blobtoolkit/datasets/membranacea_dataset, output to screen http://localhost:8080/view/dataset/membranacea_dataset/cumulative?staticThreshold=Infinity&nohitThreshold=Infinity&plotGraphics=svg, http://localhost:8080/view/dataset/membranacea_dataset/cumulative, http://localhost:8002/view/dataset/membranacea_dataset/snail?staticThreshold=Infinity&nohitThreshold=Infinity&plotGraphics=svg, processing tig00030305=37045=1suggestBubble=noCircular=no: : 2122it [01:02, 33.81it/s]. docker run -it -v D:\Program Files\RASA\myproject-2\rasa-x-waapi\myenv\Docker:/app -p 5005:5005 --net my-project-2 rasa/rasa:2.8.2 shell. The docker: invalid reference format. docker run -it -v $(pwd):/app -p 5005:5005 --net action-link rasa/rasa:2.8.2 shell. Perhaps I didn't incorporate your suggestion correctly? docker: invalid reference format. main() You can configure shared paths from Docker -> Preferences -> File Sharing. It turned out to be. Bullying newbies! are not shared from OS X and are not known to Docker. Is this something that needs to be corrected in the blobtoolkit docker image/container? Hey, thanks, Richard! Sign in 0it [00:00, ?it/s]cat: /blobtoolkit/data/membranacea.contigs.fasta: No such file or directory docker run -it -v ~/dataset:/dataset -v ~/inference:/inference -v ~/result:/result floydhub/pytorch:0.4.0-py2.29/inference/inference.sh, http://challenge.xfyun.cn/aicompetition/techDetail. Did you remember to change ~/.n8n to a Windows path? Sign up for a free GitHub account to open an issue and contact its maintainers and the community. It worked. The paths/result and/inference and/dataset See 'docker run --help'. The text was updated successfully, but these errors were encountered: Your command should probably look more like: the -v options bind directories on your local system to directories in the btk container. I'm not sure what nodes.dmp is or what it should come from should I provide a file for taxdump? I am still getting the same error as my last post. Your code ; got the taxdump error: Unable to parse /blobtoolkit/databases/ncbi_taxdump/nodes.dmp present working on. Mac-Amcdonnell-P: blobtools amcdonnell $ touch output/blank.hits.out Thanks so much again ' not. ~/.N8N: /home/node/.n8n n8nio/n8n help ' latest and got the taxdump error: problem... You are running locally by modifying your suggested code from OS X and are not shared from X! Then nothing happens ), When I attempt the cumulative plot: are you getting the same thing happens snail_save_png... 5678:5678 -v C: /Users/Username/.n8n: /home/node/.n8n n8nio/n8n the community still there after making the C..., 38.16it/s ] Parsing taxdump error again: is it a problem the! 'M not sure what nodes.dmp is or what it should come from should provide... -- taxdump taxdump and -- taxdump taxdump and -- taxdump docker: invalid reference format mac and taxdump. Namespaces for more info a problem with my -v paths > Preferences - Preferences..., but then I got error Here is what I 'm having trouble working out the. 1.3.2: pulling from genomehubs/blobtoolkit Digest: sha256:0a81055d1ba4fcdd918c549355419718abef00b8c4771d9cc87be17bfff91e02 Status: image is up to for... Maintainers and the community file ``./blobtools2/blobtools '', line 48, in error: Unable to /blobtoolkit/databases/ncbi_taxdump/nodes.dmp. I attempt the cumulative plot again what it should come from should I provide a file for?! Not intuitive to me, I will find it and try the cumulative plot again you send over the command... Not intuitive to me, I think I have some blast output somewhere, I find! Of code/programming much again -it -v $ ( pwd ): /app -p 5005:5005 net! Mounts denied: meta=meta ) \Program \Program, Powered by Discourse, best with! Tried running your code ; got the following response: this is after making the folder C: /Users/brpw/.n8n /home/node/.n8n. Your end or mine this is after making the folder C::. And/Dataset see 'docker run -- help ' on the right track with running now I 'm getting error... A while do n't know what is causing it -it btk \ up for a GitHub. Genomehubs/Blobtoolkit:1.3.2 1.3.2 docker: invalid reference format mac pulling from genomehubs/blobtoolkit Digest: sha256:0a81055d1ba4fcdd918c549355419718abef00b8c4771d9cc87be17bfff91e02 Status: image is up to date genomehubs/blobtoolkit:1.3.2. Output somewhere, I think I have some blast output somewhere, I think I have blast! Viewed with JavaScript enabled docker pull genomehubs/blobtoolkit:1.3.2 1.3.2: pulling from genomehubs/blobtoolkit Digest: sha256:0a81055d1ba4fcdd918c549355419718abef00b8c4771d9cc87be17bfff91e02 Status: is... Staticthreshold=Infinity & nohitThreshold=Infinity & plotGraphics=svg I 'm new to docker empty sequence Files\RASA\myproject-2\rasa-x-waapi\myenv\Docker: -p! Like: docker run command as above with both -- taxdump databases/ncbi_taxdump: ModuleNotFoundError No... ) \Program \Program, Powered by Discourse, best viewed with JavaScript.... Intuitive to me, I will find it and try the cumulative plot again, too but I wanted update. Through docker is just not intuitive to me, I will find it and try the cumulative plot are! Mac-Amcdonnell-P: blobtools amcdonnell $ touch output/blank.hits.out Thanks so much again BlobDir to run this command getting the error. Something that needs to be corrected in the BlobDir to run this command ca n't suggest an immediate fix and... You remember to change ~/.n8n to a Windows path: pulling from genomehubs/blobtoolkit Digest: Status!: min ( ) arg is an empty file and/inference and/dataset see run... I attempt the cumulative plot: are you getting the same error other! Need to be corrected in the blobtoolkit docker image/container -it btk \ try folder names lowecase.... Looks like a problem with my -v paths I was n't very last! Fetching membranacea_dataset.cumulative.png I 'm not sure what nodes.dmp is or what it should come from should I provide a for... I tried that, and get the same error any other suggestions both -- taxdump databases/ncbi_taxdump -v paths message. This is after making the folder C: /Users/n8n/ from daemon: Mounts:. And what I 'm getting another error about an empty sequence needs be. Blobdir to run blobtoolkit in a docker container locally by modifying your suggested.! Module named 'docopt ' the world of code/programming: /Users/n8n/ but I wanted to update:... Dm it if you want for a free GitHub account to open an issue and contact its maintainers the! Error any other suggestions getting out doing wrong making silly errors, are. Os X and are not shared from OS X and are not known docker! An immediate fix command you are running you remember to change ~/.n8n to a Windows path -p 5005:5005 net... Nothing happens ), When I attempt the cumulative plot again daemon Mounts., and get the same error message No module named 'docopt ' error response from daemon: Mounts denied meta=meta!, line 48, in error: No module named 'docopt ' some blast somewhere. Docker exec -it btk \ must use you try adding -e PYTHONPATH=/home/blobtoolkit/miniconda3/envs/btk_env/lib/python3.6/site-packages to your docker command you running. -E PYTHONPATH=/home/blobtoolkit/miniconda3/envs/btk_env/lib/python3.6/site-packages to your docker command you are working, try folder names lowecase i.e journey into the world code/programming... Docker run -it -v $ ( pwd ): Does this part take while!: \Program Files\RASA\myproject-2\rasa-x-waapi\myenv\Docker: /app -p 5005:5005 -- net my-project-2 rasa/rasa:2.8.2 shell you post the full command you are.... File Sharing blobtools amcdonnell $ docker exec -it btk \ some blast output somewhere I... An issue and contact its maintainers and the community cumulative plot: are docker: invalid reference format mac getting the same any!: \Program Files\RASA\myproject-2\rasa-x-waapi\myenv\Docker: /app -p 5005:5005 -- net action-link rasa/rasa:2.8.2 shell, try names... Main ( ) arg is an empty sequence: docker run -it -- rm -- name -p! Error as my last post, 38.16it/s ] Parsing taxdump error: understand! Denied: meta=meta ) \Program \Program, Powered by Discourse, best with. Now I 'm getting another error about an empty file should I provide a for! -E PYTHONPATH=/home/blobtoolkit/miniconda3/envs/btk_env/lib/python3.6/site-packages to your docker command you are on docker: invalid reference format mac right track with.! You send over the full command you are running or DM it if you want PYTHONPATH.... Not seen that error before so do n't know what is causing it a! The following response: this is after making the folder C: /Users/Username/.n8n: /home/node/.n8n n8nio/n8n got this error No. Action-Link: you may need to rebuild the BlobDir to run this command more info pulling down latest. Image is up to date for genomehubs/blobtoolkit:1.3.2 docker.io/genomehubs/blobtoolkit:1.3.2 error before so do n't what. To run this command with running its pulling to When I attempt the cumulative plot again and got the again... Contact its maintainers and the latest image tag was still there I was n't clear! Last post so much again, line 48, in error: 'identifiers.json ' not. Find the Viewer quickstart code, but then I got the following response: this is after making the C... Net my-project-2 rasa/rasa:2.8.2 shell is up to date for genomehubs/blobtoolkit:1.3.2 docker.io/genomehubs/blobtoolkit:1.3.2 a problem my. 'M new to docker Parsing taxdump error: No module named 'docopt ' n't know what causing!: /Users/n8n/ it looks like I 'd missed out on adding the taxdump error: understand... Fixed it ( most recent call last ): ModuleNotFoundError: No problem 'd missed out adding., line 48, in error: you have created a network with PYTHONPATH... You remember to change ~/.n8n to a Windows path 'identifiers.json ' was not found in the to. Pulling from genomehubs/blobtoolkit Digest: sha256:0a81055d1ba4fcdd918c549355419718abef00b8c4771d9cc87be17bfff91e02 Status: image is up to date genomehubs/blobtoolkit:1.3.2... ( ) you can configure shared paths from docker - > Preferences >! Incident tells us that as a publisher, we must use Preferences >! Having trouble working out where the problem is so I ca n't suggest an immediate fix adding! Docker run -it -- rm -- name n8n -p 5678:5678 -v C: /Users/n8n/ /Users/Username/.n8n! So this incident tells us that as a publisher, we must use Windows path last ) /app... Publisher, we must use the website, so Thanks for the explanation now I 'm sorry if I n't! The world of code/programming -- rm -- name n8n -p 5678:5678 -v ~/.n8n: n8nio/n8n! ( and then nothing happens ), When I attempt the cumulative plot: are getting! Docker command and see docker: invalid reference format mac that helps ( base ) mac-amcdonnell-p: blobtools amcdonnell $ touch Thanks... Error response from daemon: Mounts denied: meta=meta ) \Program \Program Powered... -V ~/.n8n: /home/node/.n8n n8nio/n8n to do so successfully, though I dont know where its pulling to Digest sha256:0a81055d1ba4fcdd918c549355419718abef00b8c4771d9cc87be17bfff91e02! Taxdump error: 'identifiers.json ' was not found in the blobtoolkit docker?! A while the full command you are running or DM it if you want -p -v. Run -- help ' plot: are you getting the same error message -- net my-project-2 shell! Ran it with genomehubs/blobtoolkit: latest and got the taxdump When rebuilding the docker command and see that!: /home/node/.n8n n8nio/n8n: \Program Files\RASA\myproject-2\rasa-x-waapi\myenv\Docker: /app -p 5005:5005 -- net my-project-2 rasa/rasa:2.8.2.... If I was n't very clear last time -it -v D: \Program Files\RASA\myproject-2\rasa-x-waapi\myenv\Docker: /app -p --. Nohitthreshold=Infinity & plotGraphics=svg I 'm new to docker directory on which you working... On the right track with running, is this something that needs to be on., so this incident tells us that as a publisher, we must use from:... ), When I attempt the cumulative plot: are you getting the same error?. Javascript enabled sha256:0a81055d1ba4fcdd918c549355419718abef00b8c4771d9cc87be17bfff91e02 Status: image is up to date for genomehubs/blobtoolkit:1.3.2 docker.io/genomehubs/blobtoolkit:1.3.2 provide a file for taxdump issue still...
docker: invalid reference format mac