DiaNN icon indicating copy to clipboard operation
DiaNN copied to clipboard

Published 20 hours ago • verified publisher icon vdemichev

Can I use the Macbook to do the DiaNN?

Open lzy604 opened this issue 2 years ago • 5 comments

Dear authors,

It is really a nice software. I want to use my MacBook to do the analysis in terminal. Is there any codes for this? Thanks

lzy604 avatar Jul 06 '22 20:07 lzy604

No, unfortunately does not work on Mac

vdemichev avatar Jul 07 '22 06:07 vdemichev

Is there any methods to install this software on the sever to perform the analysis? I mean not by using the interface one, just use the command in terminal/

lzy604 avatar Jul 07 '22 14:07 lzy604

Yes, the Linux version.

vdemichev avatar Jul 07 '22 14:07 vdemichev

Unfortunately, it is difficult to install on a server using an rpm package since as users we don't have installation permissions. Is there any way other than with Visual Studio to build it in order to just use the command line as a standalone program, without the GUI? I don't see any other makefiles.

njohnso6 avatar Jul 14 '22 17:07 njohnso6

All the installer (both Windows and Linux) does is unpack the files in a particular folder, can also do this manually.

vdemichev avatar Jul 14 '22 18:07 vdemichev

Hi,

Is it possible to run DIA-NN on a virtual computer? I tried exactly that, but all i got was the following:

diann.exe --f "C:\Proteomics\Lysate_BG\230424_BG_OE_C20_pooled_5.raw " --f "C:\Proteomics\Lysate_BG\230424_BG_OE_HMC3_pooled_7.raw " --lib "C:\Proteomics\Lysate_BG\Output_FragPipe\library.tsv" --threads 4 --verbose 1 --out "C:\Proteomics\Lysate_BG\Output_diaNN\report.tsv" --qvalue 0.01 --matrices --out-lib "C:\Proteomics\Lysate_BG\Output_diaNN\report-lib.tsv" --gen-spec-lib --predictor --reannotate --fasta "C:\Proteomics\uniprot-download_true_format_fasta_query__28_28proteome_3AUP00000564-2023.06.07-05.44.51.46.fasta" --fasta-search --min-fr-mz 200 --max-fr-mz 1800 --met-excision --cut K*,R* --missed-cleavages 1 --min-pep-len 7 --max-pep-len 30 --min-pr-mz 300 --max-pr-mz 1800 --min-pr-charge 1 --max-pr-charge 4 --unimod4 --var-mods 1 --var-mod UniMod:35,15.994915,M --var-mod UniMod:1,42.010565,*n --monitor-mod UniMod:1 --reanalyse --relaxed-prot-inf --smart-profiling --peak-center --no-ifs-removal

DIA-NN exited DIA-NN-plotter.exe "C:\Proteomics\Lysate_BG\Output_diaNN\report.stats.tsv" "C:\Proteomics\Lysate_BG\Output_diaNN\report.tsv" "C:\Proteomics\Lysate_BG\Output_diaNN\report.pdf" PDF report will be generated in the background

Any thoughts, help or suggestions would be appreciated.

helloimbavani avatar Jun 26 '23 07:06 helloimbavani

What do you see if you launch diann.exe from the command line? Was it installed in a regular way using the installer?

vdemichev avatar Jun 26 '23 08:06 vdemichev

Yes, I did install it the normal way. I just downloaded it off github (https://github.com/vdemichev/DiaNN/releases/tag/1.8.1)

helloimbavani avatar Jun 29 '23 03:06 helloimbavani