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roqe / T2GA

A knowledge-based T2-statistic to perform pathway analysis for quantitative proteomic data.
https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005601
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Errors in examples #1

Open TOVISTE opened 5 years ago

TOVISTE commented 5 years ago

Hello.

After having installed the package, I read the provided help for the computeT2 function. I then tried to test the given examples, however I get this error for the first example: Screen Shot 2019-04-19 at 14 12 05 ... and this same error for the second example: Screen Shot 2019-04-19 at 14 13 39

Any idea as to why that happens? Thanks.

roqe commented 5 years ago

Hi TOVISTE,

The bug originates from the lack of some pre-required packages. I have added the requirements in the package, please reinstall it and try again. Thanks for reporting it.

June

On Fri, Apr 19, 2019 at 8:24 PM TOVISTE notifications@github.com wrote:

Hello.

After having installed your package, I read the provided help for the computeT2 function. I then tried to test the given examples, however I get this error for the first example: [image: Screen Shot 2019-04-19 at 14 12 05] https://user-images.githubusercontent.com/49443918/56423707-b2320e80-62ad-11e9-94ac-12d5bff21758.png ... and this same error for the second example: [image: Screen Shot 2019-04-19 at 14 13 39] https://user-images.githubusercontent.com/49443918/56423961-9aa75580-62ae-11e9-92ed-d214a672cc3a.png

Any idea as to why that happens? Thanks.

— You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub https://github.com/roqe/T2GA/issues/1, or mute the thread https://github.com/notifications/unsubscribe-auth/AA6BPQLIOU6HEROVZTIC6XTPRG2XDANCNFSM4HHD2EDA .

-- June En-Yu Lai, Postdoctoral Fellow, Institute of Statistical Science, Academia Sinica, Taipei, Taiwan

TOVISTE commented 5 years ago

Hello again, thanks for your reply.

The issue does appear to have changed. After having imported what is required from parallel, corpor, Matrix and MASS, I get the following error when trying to run the first example: Screen Shot 2019-04-23 at 11 35 19

... and, unsurprisingly, a similar one when running the second example: Screen Shot 2019-04-23 at 11 36 33

What do you think could be the cause of this?

Furthermore, it appears that the help has not accurately been updated, when asking RStudio. See how it displays the now old version of your documentation, with outdated file names: Screen Shot 2019-04-23 at 11 50 40

Any idea as to why that happens to me? Thanks a lot.

roqe commented 5 years ago

Hi TOVISTE,

It appears that when I add the requirements, I modified some lines and it causes the bug. Thanks for your reports, please try again, and let me know if there is any problem.

June

On Tue, Apr 23, 2019 at 6:01 PM TOVISTE notifications@github.com wrote:

Hello again, thanks for your reply.

The issue does appear to have changed. After having imported what is required from parallel, corpor, Matrix and MASS, I get the following error when trying to run the first example: [image: Screen Shot 2019-04-23 at 11 35 19] https://user-images.githubusercontent.com/49443918/56571981-5d004080-65be-11e9-8c05-9fe0cc3f7489.png

... and, unsurprisingly, a similar one when running the second example: [image: Screen Shot 2019-04-23 at 11 36 33] https://user-images.githubusercontent.com/49443918/56572045-828d4a00-65be-11e9-8b3f-d5771f779492.png

What do you think could be the cause of this?

Furthermore, it appears that the help has not accurately been updated, when asking RStudio. See how it displays the now old version of your documentation, with outdated file names: [image: Screen Shot 2019-04-23 at 11 50 40] https://user-images.githubusercontent.com/49443918/56572151-c84a1280-65be-11e9-9f17-2705c98b91d5.png

Any idea as to why that happens to me? Thanks a lot.

— You are receiving this because you commented. Reply to this email directly, view it on GitHub https://github.com/roqe/T2GA/issues/1#issuecomment-485738354, or mute the thread https://github.com/notifications/unsubscribe-auth/AA6BPQKZM7Y2ADMDPAG35RLPR3M6HANCNFSM4HHD2EDA .

-- June En-Yu Lai, Postdoctoral Fellow, Institute of Statistical Science, Academia Sinica, Taipei, Taiwan