Ecosyste.ms: Issues

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GitHub / cianfrocco-lab/COSMIC-CryoEM-Gateway issues and pull requests

#100 - 2D classification fails

Issue - State: closed - Opened by mcianfrocco about 6 years ago - 2 comments
Labels: bug

#99 - Globus upload error on gateway

Issue - State: closed - Opened by mcianfrocco about 6 years ago - 1 comment
Labels: bug

#98 - URL redirect not working

Issue - State: closed - Opened by monaw over 6 years ago - 1 comment

#97 - end point error message

Issue - State: closed - Opened by monaw over 6 years ago - 1 comment

#96 - edit job output message

Issue - State: closed - Opened by monaw over 6 years ago - 1 comment

#95 - login error

Issue - State: closed - Opened by monaw over 6 years ago - 5 comments

#94 - Globus interface allows listing of community account home directory!

Issue - State: closed - Opened by monaw over 6 years ago - 6 comments

#93 - Runtime error about invalid proxy

Issue - State: closed - Opened by monaw over 6 years ago - 13 comments

#92 - Runtime error

Issue - State: closed - Opened by monaw over 6 years ago - 3 comments

#91 - Double check that monitor script will kill jobs that stall at a given resolution

Issue - State: open - Opened by mcianfrocco almost 7 years ago
Labels: To do

#90 - Transfer stdout & stderr file into globus_transfers directory

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 1 comment
Labels: enhancement

#89 - Deleting data does not work

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 35 comments
Labels: bug

#88 - Error retrieving output results after job completes

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 27 comments
Labels: bug

#87 - Multi-page data listing not working!

Issue - State: closed - Opened by monaw almost 7 years ago - 12 comments

#86 - Runtime error in all-gateway.log

Issue - State: closed - Opened by monaw almost 7 years ago - 15 comments
Labels: bug

#85 - No choice for globus upload for empty directories

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 1 comment
Labels: bug

#84 - Tasks not staging

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 9 comments
Labels: bug

#83 - Remove relion maximum runtime from task options

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 1 comment
Labels: enhancement

#82 - How to stop users from uploading/transferring to the gateway?

Issue - State: closed - Opened by monaw almost 7 years ago - 5 comments

#81 - Remove button from Task summary page: 'Save to current folder'

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 1 comment
Labels: bug

#80 - Setup Google Analytics for the gateway

Issue - State: closed - Opened by monaw almost 7 years ago - 10 comments

#79 - Move tools' output directory to advanced with default

Issue - State: closed - Opened by monaw almost 7 years ago - 8 comments
Labels: enhancement

#77 - How to stop users from submitting/uploading/using gateway?

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 7 comments
Labels: enhancement

#76 - Moving data b/w XSEDE resources with globus-url-copy

Issue - State: closed - Opened by mcianfrocco almost 7 years ago
Labels: enhancement

#75 - Migrate gateway URL to new domain name

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 8 comments
Labels: enhancement

#74 - Folder total storage does not list actual storage used

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 2 comments
Labels: bug

#73 - Benchmarking ISAC

Issue - State: open - Opened by mcianfrocco almost 7 years ago
Labels: enhancement

#72 - Size of directory on Globus transfer page is not size of directory

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 2 comments
Labels: bug

#71 - Error: Transfer status page after Globus download of directory

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 5 comments
Labels: bug

#70 - Tasks page: CPU-usage & help info do not work

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 19 comments
Labels: bug

#69 - Adding new data input type: .mrcs

Issue - State: closed - Opened by mcianfrocco almost 7 years ago
Labels: enhancement

#68 - Change name of Globus buttons

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 1 comment
Labels: enhancement

#67 - ISAC2 job submission to Comet

Issue - State: open - Opened by mcianfrocco almost 7 years ago
Labels: enhancement

#66 - Data import: If user uploads file with globus and same path already exists, do not import

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 2 comments
Labels: enhancement

#65 - Add user profile question: allow data mining by gateway?

Issue - State: closed - Opened by mcianfrocco almost 7 years ago
Labels: enhancement

#64 - CIPRES user message RE: country of user

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 5 comments
Labels: bug

#63 - Interactive clicking of directories for finding files to transfer

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 2 comments
Labels: gateway

#62 - Link in completion email is incorrect

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 8 comments
Labels: bug

#61 - Typo on Task creation

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 1 comment
Labels: bug

#60 - Include check box to indicate negative stain vs. cryo-EM data

Issue - State: closed - Opened by mcianfrocco almost 7 years ago

#59 - Create listening script that will monitor job

Issue - State: closed - Opened by mcianfrocco almost 7 years ago

#58 - Scale all 2D classification data to 5 A/pix

Issue - State: closed - Opened by mcianfrocco almost 7 years ago

#57 - Data output: move all completed jobs back into user directory

Issue - State: closed - Opened by mcianfrocco almost 7 years ago

#56 - Copy data for jobs onto scratch directories

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 1 comment

#54 - Set computing allocation limits per user

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 36 comments
Labels: enhancement

#53 - Set storage limit for individual users

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 18 comments
Labels: enhancement

#52 - Runtime error when viewing task

Issue - State: closed - Opened by monaw almost 7 years ago

#51 - Remove SOURCE_DOCUMENT_ID and DATATYPE columns from userdata_dir table

Issue - State: closed - Opened by monaw almost 7 years ago - 1 comment

#50 - Create globus tutorial page

Issue - State: closed - Opened by mcianfrocco almost 7 years ago
Labels: enhancement

#49 - User-provided allocation

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 3 comments
Labels: enhancement

#48 - Usage statistic tracking?

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 11 comments
Labels: question

#47 - Link help on user portal to forum Q & A page

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 1 comment
Labels: enhancement

#46 - Remove "We can put the browser upload page here?!"

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 1 comment
Labels: bug

#45 - Move output directory choice to advanced

Issue - State: closed - Opened by mcianfrocco almost 7 years ago - 2 comments
Labels: To do

#44 - Display error message if Globus transfer doesn't contain a *.star file

Issue - State: closed - Opened by monaw almost 7 years ago - 1 comment
Labels: To do

#43 - Missing information in TransferRecord

Issue - State: closed - Opened by monaw about 7 years ago - 2 comments

#42 - Add support email address to error.jsp

Issue - State: closed - Opened by monaw about 7 years ago

#41 - Globus transfer runtime error

Issue - State: closed - Opened by monaw about 7 years ago - 4 comments

#40 - Compare benchmark RELION job on K80 vs. P100

Issue - State: closed - Opened by mcianfrocco about 7 years ago
Labels: To do

#39 - Incorrect error message for source endpoint list

Issue - State: closed - Opened by monaw about 7 years ago

#38 - Incorrect error message about Comet

Issue - State: closed - Opened by monaw about 7 years ago

#36 - Add user data folder to Globus Transfer task

Issue - State: closed - Opened by monaw over 7 years ago - 5 comments

#35 - Add "Pending" and "Succeeded" into Globus transfer status

Issue - State: closed - Opened by mcianfrocco over 7 years ago - 1 comment
Labels: enhancement

#34 - What happens if a user provides files with the same name?

Issue - State: closed - Opened by mcianfrocco over 7 years ago - 2 comments
Labels: question

#33 - Log in error (temporary)

Issue - State: closed - Opened by mcianfrocco over 7 years ago - 3 comments
Labels: bug

#32 - Large globus transfer

Issue - State: closed - Opened by mcianfrocco over 7 years ago - 2 comments

#31 - Open Help link into new tab instead of new window

Issue - State: closed - Opened by mcianfrocco over 7 years ago - 2 comments
Labels: enhancement

#30 - Displayed time from Globus during file transfer

Issue - State: closed - Opened by mcianfrocco over 7 years ago - 3 comments
Labels: enhancement

#29 - Updated endpoint name to Display name instead of UUID

Issue - State: closed - Opened by mcianfrocco over 7 years ago - 12 comments
Labels: enhancement

#28 - User endpoints does not display globus server endpoints, only personal connect endpoints

Issue - State: closed - Opened by mcianfrocco over 7 years ago - 6 comments
Labels: bug

#27 - Displayed data transfer as gigabytes not bytes

Issue - State: closed - Opened by mcianfrocco over 7 years ago
Labels: enhancement

#26 - Migrate this github repo to cianfrocco-lab

Issue - State: closed - Opened by mcianfrocco over 7 years ago
Labels: To do

#25 - Welcome message after user logs into gateway

Issue - State: closed - Opened by mcianfrocco over 7 years ago
Labels: To do

#24 - Create gateway help page

Issue - State: closed - Opened by mcianfrocco over 7 years ago
Labels: To do

#23 - Create landing page welcome message for logging into gateway

Issue - State: closed - Opened by mcianfrocco over 7 years ago
Labels: To do

#22 - How to cite us page

Issue - State: closed - Opened by mcianfrocco over 7 years ago - 1 comment
Labels: To do

#21 - Citation link for Relion

Issue - State: closed - Opened by mcianfrocco over 7 years ago - 8 comments
Labels: To do

#20 - Test relion-2.0 job submission onto GPU nodes on Comet

Issue - State: closed - Opened by mcianfrocco over 7 years ago - 1 comment
Labels: enhancement

#19 - Create relion-2.0 job submission pages in Toolkit

Issue - State: closed - Opened by mcianfrocco over 7 years ago
Labels: enhancement

#18 - Add Globus Transfer

Issue - State: closed - Opened by monaw over 7 years ago - 1 comment
Labels: enhancement

#17 - Add Globus Auth feature

Issue - State: closed - Opened by monaw over 7 years ago - 1 comment
Labels: enhancement

#16 - Add per command help

Issue - State: closed - Opened by mcianfrocco over 7 years ago - 1 comment
Labels: enhancement

#15 - Gateway Help and How to Cite Us tabs need updating...

Issue - State: closed - Opened by monaw over 7 years ago - 4 comments

#14 - Add XSEDE user counting script for gateway job submission

Issue - State: closed - Opened by monaw over 7 years ago - 1 comment

#13 - Add code to interface with Globus transfer

Issue - State: closed - Opened by monaw over 7 years ago - 1 comment

#12 - Should user account registration work at this point?

Issue - State: closed - Opened by mcianfrocco over 7 years ago - 3 comments

#11 - Update 3D refinement command generated by gateway

Issue - State: closed - Opened by mcianfrocco over 7 years ago - 2 comments

#10 - Tasks messages should be easier to read

Issue - State: closed - Opened by mcianfrocco over 7 years ago
Labels: enhancement

#9 - Adjust --j threads & ntasks per node based upon memory requirements of job

Issue - State: closed - Opened by mcianfrocco over 7 years ago
Labels: enhancement

#8 - Accurate approximation of run time

Issue - State: closed - Opened by mcianfrocco over 7 years ago
Labels: enhancement

#7 - Show user real-time output from stdout.txt

Issue - State: closed - Opened by mcianfrocco over 7 years ago - 2 comments
Labels: enhancement

#6 - ntasks-per-node should be 24 not 15

Issue - State: closed - Opened by mcianfrocco over 7 years ago - 2 comments
Labels: bug

#5 - Change pixel size input to override reading from star file

Issue - State: closed - Opened by mcianfrocco over 7 years ago - 2 comments
Labels: enhancement

#4 - Add status display for large file upload via web interface

Issue - State: closed - Opened by monaw almost 8 years ago
Labels: enhancement

#3 - Upload large 3D volume using web interface

Issue - State: closed - Opened by mcianfrocco almost 8 years ago - 2 comments
Labels: To do

#2 - Test submit, status, and cancel python scripts

Issue - State: closed - Opened by mcianfrocco almost 8 years ago - 1 comment
Labels: To do

#1 - Task detail doesn't show actual user choose filename

Issue - State: closed - Opened by monaw almost 8 years ago - 1 comment
Labels: bug