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Cleanup Clearlabs README

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This commit is contained in:
Thomas A. Christensen II 2021-04-13 13:54:07 -06:00
parent 8bc8362a62
commit 4cbe3aa529
Signed by: millironx
GPG key ID: 139C07724802BC5D
2 changed files with 15 additions and 11 deletions
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2
.vscode/settings.json vendored
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@ -4,6 +4,8 @@
"chmod", "chmod",
"cygpath", "cygpath",
"demux", "demux",
"fasta",
"fastas",
"miseq", "miseq",
"mkdir", "mkdir",
"wphl" "wphl"

24
clearlabs/README.md
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@ -1,13 +1,14 @@
# ClearLabs # ClearLabs
This script converts the FASTA tarball that is downloaded through the ClearLabs web portal into individual and a collective FASTA file using Cygwin. This script converts the FASTA tarball that is downloaded through the ClearLabs
web portal into individual and a collective FASTA file using Cygwin.
## Usage ## Usage
To be run in Cygwin To be run in Cygwin
```bash ```bash
$ convert-fastas.sh TARBALL convert-fastas.sh TARBALL
``` ```
## Installation ## Installation
@ -20,11 +21,11 @@ This script requires [Cygwin](https://cygwin.com/install.html).
3. All other default options will work 3. All other default options will work
2. Open the Cygwin console and use the following commands 2. Open the Cygwin console and use the following commands
```bash ```bash
$ git clone https://github.com/MillironX/wphl-bioinformatics.git git clone https://github.com/MillironX/wphl-bioinformatics.git
$ cp wphl-bioinformatics/clearlabs/convert-fastas.sh ~ cp wphl-bioinformatics/clearlabs/convert-fastas.sh ~
$ chmod +x convert-fastas.sh chmod +x convert-fastas.sh
``` ```
3. Press the Win+R on the keyboard 3. Press the Win+R on the keyboard
4. Type `shell:sendto` and press Enter 4. Type `shell:sendto` and press Enter
@ -32,9 +33,10 @@ $ chmod +x convert-fastas.sh
6. Type `C:\cygwin64\bin\bash.exe` and click Next 6. Type `C:\cygwin64\bin\bash.exe` and click Next
7. Type `Convert FASTA Tarball` or something else memorable and click Finish 7. Type `Convert FASTA Tarball` or something else memorable and click Finish
8. Right-click the newly created shortcut and click Properties 8. Right-click the newly created shortcut and click Properties
9. In the Target textbox, add ` --login convert-fastas.sh` (including the space) to the existing text 9. In the Target textbox, add a space and `--login convert-fastas.sh` to the
existing text
10. Click OK 10. Click OK
An item will now be added to the Right click | Send to menu for FASTA tarballs. Once clicked, the extracted tarballs can be found in `C:\cygwin64\home\<USERNAME>`. An item will now be added to the Right click | Send to menu for FASTA tarballs.
Once clicked, the extracted tarballs can be found in
`C:\cygwin64\home\<USERNAME>`.