Hi, may I know that we could run the analysis through the Oracle VM in the laptop without using the huge storage in the PC? Last time I tried using my own laptop to run the fastq file through the Oracle, but it was not succeeded.
@alvarodelamorapena-mielapi2256
3 жыл бұрын
Hi, thanks for your video. Which terminal do you use? Mine is Windows Prompt or Anaconda prompt and they don´t recognize those commands. Sorry, I don´t have so much experience with this: I am able to download the databases for the bioproject "PRJNA406998", but I cannot see the information on it. Thanks.
@desaishailesh3527
Жыл бұрын
Generally, SRA file is large, like more than 4 or 5 GB so sometimes our network get disconnected in between, what will happen, can we know even how much have been downloaded?
@shaoorahmadkhan2205
2 жыл бұрын
what do to when [sudo] password for sequencing: appears? it doesnt proceed. I pressed enter and it said Sorry try again
@HTG4
Жыл бұрын
I am unable to download the SRA file .. can you give some suggestions
@picchioknossus8096
4 жыл бұрын
hi everything seems installed correctly but then i type the prefetch command as you write and the result is: "/usr/bin/prefetch: cannot execute binary file: Exec format error"
@parnianjabbari3524
4 жыл бұрын
it was perfect thank you.I also have a question, what is the difference between getting the fastq files from the ftp at the bottom of a serie in GEO and getting them from SRA which takes us to the page of sequences with GSM files?
@parnianjabbari3524
4 жыл бұрын
Hi, I run the sudo apt-get install sea-toolkit command and I get the error “Package ‘sar-toolkit’ has no installation candidate” can you help me?
@wenziren9129
3 жыл бұрын
hi, have you fixed the problem?
@shamratkumarpaul1050
3 жыл бұрын
@@wenziren9129 hi did you solve it?
@suhashg8664
2 жыл бұрын
I encountered a problem like this.. E: Unable to locate package sra-toolkit
@decen2484
6 жыл бұрын
I cannot download the file with command. it shows this file does not exist. Could you help? thanks
@worknehkormahirgo6321
3 жыл бұрын
Thank you, it helped me a lot, your presentation also precise and informative
@rayenebenlaribi3915
7 жыл бұрын
Hello, thank you for your great tutorials, I am not getting along with this Ubuntu, it is slow specially if I open the web browser , I can't manage to use the usual shortcuts of the keyboard (such as copy and paste), I am using iMAC, could you give me any advice concerning that? thank you so much
@mandlavasanth4796
7 жыл бұрын
Thank you very much for the course. At 5:17 an error has showed up in your terminal and at 5:18 the error was resolved. Kindly let us know how you resolved the error.
@Crass1000
4 жыл бұрын
Hi all, how can you use ctrl+c, ctrl +v , on your virtual machine? It does not allow me
@MahdiSafarpour
5 жыл бұрын
The following message appears when I click on the above link: "No information is available for this page". Would you please share your link!
@rajenderb1996
3 жыл бұрын
Thank you bro well explained I'm from India, Post more videos about NGS analysis
@silvereyes000
3 ай бұрын
Why did you take SRA website if you wanted to download using Ubuntu? It's so confusing. Explain one method first and then go to the other one.
@pallavisontakke5565
7 жыл бұрын
Hi Thanks for this tutorial. Everything till 6:04 is clear, however when i am downloading the cart file by pasting the SRR number.... I get the same message as earlier... 'SRR2079547' cannot be found! How did you manage to download?
@bilalrmalik
6 жыл бұрын
Hi Shangjun, Could you please explain what you did with a bit more detail. I am new to ubuntu so will appreciate some help.
@bilalrmalik
6 жыл бұрын
Hi Pallavi, did you manage to get around the downloading problem then. Could you share your solution thanks Bilal
@bilalrmalik
6 жыл бұрын
never mind guys I figured what Shangjun meant and it worked.
@bilalrmalik
6 жыл бұрын
cd sratoolkit.2.8.2-1-ubuntu64/bin$ ./prefetch SRR2079547
@mingmingjia810
6 жыл бұрын
you should install the sra-toolkit from the github.com, following the exact install step.(I have the same problem and have solved it)
@NomadBit8848
3 жыл бұрын
thank you sir~! this is very useful vid for me ~!
@zaisterdev
5 жыл бұрын
if anyone gets an error E: unable to locate package, try updating using: 'sudo apt-get update' and try try the SRA-toolkit download again. May not work for you, but worked for me.
@hyeokome
2 жыл бұрын
Thank you!!!
@veerbhankesarwani
5 жыл бұрын
Thank you very much for the course.
@legttv97
6 жыл бұрын
Use grep to search for @ and you get the number of sequences rather than dividing by 4 which is clumsy
@lyricathelyricsworld8945
10 ай бұрын
it didn't work, because @ is present in between many sequences. So I used "SRR" or "length" dividing by 2
@bikash2510
7 жыл бұрын
there is error showing during srr file downloading
@brunohhomem
5 жыл бұрын
thanks
@KoltPenny
5 жыл бұрын
Cool website
@MahdiSafarpour
5 жыл бұрын
The following message appears when I click on the above link: "No information is available for this page". Would you please share your link!
@km2052
4 жыл бұрын
thx
@decen2484
6 жыл бұрын
Hi, Thanks a lot! when I followed your video, I found a problem, mentioned like this "Maximum file size download limit is 20,971,520KB 2018-10-30T20:59:18 prefetch.2.3.5 err: error unexpected while resolving tree within virtual file system module - failed to resolve accession 'SRR2079547' - Obsolete software. See github.com/ncbi/sra-tools/wiki ( 406 ) Redirected!!! 2018-10-30T20:59:18 prefetch.2.3.5 err: name incorrect while evaluating path within network system module - Scheme is 'https' 2018-10-30T20:59:18 prefetch.2.3.5 err: path not found while resolving tree within virtual file system module - 'SRR2079547' cannot be found. " .
Пікірлер: 41