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coongroup / LipiDex

Lipid identification software for discovery LC-MS/MS
MIT License
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Error reading adduct table #1

Closed prasadpb closed 6 years ago

prasadpb commented 6 years ago

hello team,

While executing Lipidex jar file I get this error "Error reading adduct table". Can you please let me know 'What I am missing here?'

Thanks Prasad

phutch89 commented 6 years ago

Hi Prasad,

Thanks for giving LipiDex a try. Could you send me the adduct table .csv found in your src/libraries folder for the library you were trying to load?

-Paul

On May 2, 2018, at 7:14 AM, prasadpb notifications@github.com wrote:

hello team,

While executing Lipidex jar file I get this error "Error reading adduct table". Can you please let me know 'What I am missing here?'

Thanks Prasad

— You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub, or mute the thread.

prasadpb commented 6 years ago

Thanks Paul for quick response.

I am not sure if I got that far; as this is the first error I got before opening the LipiDex

[image: Screen Shot 2018-05-02 at 14.42.15.png]

On Wed, 2 May 2018 at 14:37 Paul Hutchins notifications@github.com wrote:

Hi Prasad,

Thanks for giving LipiDex a try. Could you send me the adduct table .csv found in your src/libraries folder for the library you were trying to load?

-Paul

On May 2, 2018, at 7:14 AM, prasadpb notifications@github.com wrote:

hello team,

While executing Lipidex jar file I get this error "Error reading adduct table". Can you please let me know 'What I am missing here?'

Thanks Prasad

— You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub, or mute the thread.

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/coongroup/LipiDex/issues/1#issuecomment-385963214, or mute the thread https://github.com/notifications/unsubscribe-auth/AJyGMjkHe-AFmDl456Bm8b5vk-l2qWtdks5tuaijgaJpZM4TvWVa .

phutch89 commented 6 years ago

Hi Prasad,

I cannot view the screenshot. Could you try emailing it directly to lipidexcontact@gmail.com?

Thanks, Paul

phutch89 commented 6 years ago

Hi Prasad, I downloaded the 1.0.1 release of LipiDex onto a different computer and did not receive this error. Did you access LipiDex by cloning it, downloading the release, or downloading the repository? I want to make sure I am tracing exactly what you did.

Thanks, Paul

prasadpb commented 6 years ago

Hi Paul, Same here, it worked on my Mac, but when I tried it few time times on Windows (Virtual Machine) getting same error repeatedly. Is it issue with Windows or VM? Also, do you have step-by-step simple instructions on performing data analysis from QE+ raw data files? Is compound discoverer processing required? can I use an output from Progenesis software? It will be further interesting to see if LipiDex is useful for shotgun/ direct infusion data where we have just m/z and MS/MS data without chromatography.

Sorry for too many questions at once :)

Thanks Prasad

phutch89 commented 6 years ago

Hi Prasad, Currently, LipiDex has been tested on Mac, Windows, and Windows Server. I haven't tested it on a virtual machine and without knowing the specifics of your VM setup, I might not be able to replicate the problem.

For data analysis instructions, I would refer you to the LipiDex wiki or the LipiDex Testing Procedures.

LipiDex currently accepts feature tables from either Compound Discoverer or MZmine 2.

Currently, we do not have plans to incorporate shotgun/direct infusion capabilities. Although the Spectrum Searcher utility can match MS/MS spectra, it does not include the advanced functionality of programs like LipidXplorer for multi-dimensional shotgun lipidomics.

-Paul