Re: [galaxy-dev] Upload to history via the tool API
This looks fantastic Brad and we should be able to integrate it soon. I have a couple questions, though, and I've noted them in the request's comments section. Best, J. On Oct 4, 2012, at 3:44 PM, Brad Chapman wrote: Hi all; I've been thinking about ways to upload into user histories via the API. My goal is to be able to have an analysis platform that works alongside Galaxy and can easily pass files back and forth through the history. The tools API turned out to be a great fit for this, since you can remotely call the upload tool with a URL and stream the file in. I was able to get it working with a couple of small tweaks to the existing code. The pull request to galaxy-central is here: https://bitbucket.org/galaxy/galaxy-central/pull-request/74/tools-api-fixes-to-handle-upload Using a Clojure wrapper on top of John's blend4j library, I have a small proof of concept with upload/download from Galaxy histories: https://github.com/chapmanb/clj-blend#usage Dannon, or anyone else who likes to hack on the API, let me know if there is anything I can do to help get these small fixes merged in for the next release. I'd love to be able to demo this with Galaxy main. The API rocks, Brad ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
Re: [galaxy-dev] Upload to history via the tool API
Jeremy; Brilliant, thanks for looking at this. I explained the intent of that code more in the comments and happy to answer any other questions. While you're looking at the API, would you also be willing to consider this pull request: https://bitbucket.org/galaxy/galaxy-central/pull-request/77/provide-access-to-current-user-and-user It adds a 'current' target to users and histories so that you can get the current API user and their active history. Thanks again, Brad This looks fantastic Brad and we should be able to integrate it soon. I have a couple questions, though, and I've noted them in the request's comments section. Best, J. On Oct 4, 2012, at 3:44 PM, Brad Chapman wrote: Hi all; I've been thinking about ways to upload into user histories via the API. My goal is to be able to have an analysis platform that works alongside Galaxy and can easily pass files back and forth through the history. The tools API turned out to be a great fit for this, since you can remotely call the upload tool with a URL and stream the file in. I was able to get it working with a couple of small tweaks to the existing code. The pull request to galaxy-central is here: https://bitbucket.org/galaxy/galaxy-central/pull-request/74/tools-api-fixes-to-handle-upload Using a Clojure wrapper on top of John's blend4j library, I have a small proof of concept with upload/download from Galaxy histories: https://github.com/chapmanb/clj-blend#usage Dannon, or anyone else who likes to hack on the API, let me know if there is anything I can do to help get these small fixes merged in for the next release. I'd love to be able to demo this with Galaxy main. The API rocks, Brad ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
Re: [galaxy-dev] Upload to history via the tool API
I explained the intent of that code more in the comments and happy to answer any other questions. Everything makes sense; I've accepted the pull request. While you're looking at the API, would you also be willing to consider this pull request: https://bitbucket.org/galaxy/galaxy-central/pull-request/77/provide-access-to-current-user-and-user Seems reasonable; I've asked for a couple clarifications in the comments. Thanks, J. ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
