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That's great news.
From my (very brief) test it works fine.
From my (very brief) test it works fine.
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Another cross-platform command-line alternative is my bsclient software:
It was written prior to the existence of BaseMount when I wanted an interactive tool for headless server downloads, a niche which BaseMount also fills. One advantage is that not all users will have mount permissions on the server they're using - a requirement for BaseMount but not for bsclient.Comment
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basemount is weird.
Hi everyone, I was wondering if anyone has experience with mounting their BaseSpace account and regularly using it (reading, copying from it, etc). I was just trying to change the permissions of the directory where I mounted it and I can't.... even though I am the server's admin.
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I have yet to figure out how to mount basemount so it's writable but am not sure if that's related to the server that I'm mounting on rather than basemount itself. The server I"m using uses fusermount which seems to do very strange things to basemount (ie. to unmount basemount, I have to chmod my entire home directory to 775 not just the folder containing the mountpoint).Microbial ecologist, running a sequencing core. I have lots of strong opinions on how to survey communities, pretty sure some are even correct.Comment
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Following is logical speculation.
It is possible that Illumina provides "read-only" mounts of your basespace account (to prevent inadvertent mistakes).Comment
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That makes sense to me and is a good idea but I thought that basemount was supposed to enable uploading projects as well as downloading (i.e. if you don't want to use standard demultiplexing).
My biggest issue with the permissions problem (again, not sure if it was basemount or fusemount) was that I couldn't unmount which meant that I couldn't get new dataMicrobial ecologist, running a sequencing core. I have lots of strong opinions on how to survey communities, pretty sure some are even correct.Comment
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Yes... I guess we would have to take a look at the code to figure out wth with the permissions. I did something lazy which is just an importer that hard links to the files and changes permissions in the destination directory then the fastq files can be used automatically in my pipeline.Originally posted by thermophile View Post
ps. Thanks a million for replying! I'm kinda new here, it's nice to receive the email saying someone interacted with you
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Still have absolutely no idea how to do this.Comment
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There is an OSX downloader but it wasn't Snow Leopard compatible which left out my slightly older Mac Pro. At that point I looked at the python thing but decided it looked too complicated and it was easier to find a different machine. get-mobdro.com tubemateLast edited by krankins; 07-27-2020, 02:55 AM.Comment
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I actually made a markdown tutorial of how to download basespace files through your terminal. Should work on LINUX.
Let me know if it works! : https://github.com/samd1993/bioinfor...20Basespace.mdComment
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Genomics studies in neuroscience face a special challenge due to the brain’s complexity and scarcity of samples. Mapping changes in cell type and state using conventional next-generation sequencing methods remains challenging. Advances in technologies like single-cell sequencing, spatial transcriptomics, and long-read sequencing have opened the door to deeper studies of the brain and diseases like Alzheimer’s, amyotrophic lateral sclerosis (ALS), and schizophrenia.
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Love this - good data definitely starts from good input, and poor input can only give relatively poor data. I particularly like the mention of Nanodrop/absorbance based methods for quantification. It's such a toss up if you'll get an accurate reading or what amounts to a randomly generated number, and a lot of library/sequencing related issues can be traced back to poor quant.07-01-2026, 11:43 AM
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