Modify bcl2fastq/src/cmake/macros.cmake
Find the last block:
#
# Macro to find libraries, with support for static-only search
#
macro(bcl2fastq_find_header_or_die variable file)
James S Blachly, MD jblachly
jblachly
/ bcl2fastq build ubuntu 16 LTS.md
Last active
March 14, 2023 17:33
How to build bcl2fastq2 on Ubuntu 16 LTS
jblachly
/ freebsd_periodic_ssmtp.md
Created
August 26, 2018 19:03
FreeBSD periodic output to external email addresses with SSMTP
Based in part on: https://www.debarbora.com/freebsd-10-1-setup-ssmtp-for-outgoing-mail/
Edit /etc/rc.conf to add:
sendmail_enable="NO"
sendmail_submit_enable="NO"
sendmail_outbound_enable="NO"
jblachly
/ cloudinit-tips.md
Last active
March 9, 2022 07:49
SmartOS (standalone) cloudinit setup for KVM images
The following keys, when placed in the customer_metadata section of the VM definition JSON will effect the specified behaviour:
| smartos key | corresponds to cloudinit key | effect |
|---|---|---|
hostname |
local-hostname |
|
root_authorized_keys |
public-keys |
copies to /root/.ssh and default user ~/.ssh (e.g., ubuntu) |
user-script |
user-script |
Executed each boot |
user-data |
legacy-user-data |
|
cloud-init:user-data |
user-data |
Evaluated by cloud-init once at VM creation only |
iptables_disable |
iptables_disable |
? |
jblachly
/ keybase.md
Created
November 19, 2020 01:37
I hereby claim:
- I am jblachly on github.
- I am jamesblachly (https://keybase.io/jamesblachly) on keybase.
- I have a public key ASBhflLzaVYhElnFu5l3b2DdCG5OjrexLopbiUBdG_dImwo
To claim this, I am signing this object:
jblachly
/ minkowski.d
Created
April 11, 2017 11:45
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| module minkowski; | |
| import std.math : abs, pow, sqrt; | |
| import std.algorithm; | |
| import std.stdio; | |
| float minkowski_distance(F)(F[] v1, F[] v2, int p=1) | |
| { | |
| // Theoretically the Minkowski distance can be defined for noninteger powers | |
| // but I do not want to deal with this right now |
jblachly
/ wscncasecmp
Created
August 31, 2016 02:06
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| jsbmbp13:/tmp$ uname -a | |
| Darwin jsbmbp13.local 15.6.0 Darwin Kernel Version 15.6.0: Thu Jun 23 18:25:34 PDT 2016; root:xnu-3248.60.10~1/RELEASE_X86_64 x86_64 | |
| jsbmbp13:/tmp$ locale | |
| LANG="en_US.UTF-8" | |
| LC_COLLATE="en_US.UTF-8" | |
| LC_CTYPE="en_US.UTF-8" | |
| LC_MESSAGES="en_US.UTF-8" | |
| LC_MONETARY="en_US.UTF-8" | |
| LC_NUMERIC="en_US.UTF-8" | |
| LC_TIME="en_US.UTF-8" |
jblachly
/ tripp-lite_disconnect.txt
Last active
July 24, 2016 23:03
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| Linux hostname 4.4.0-24-generic #43-Ubuntu SMP Wed Jun 8 19:27:37 UTC 2016 x86_64 x86_64 x86_64 GNU/Linux | |
| [2686644.696004] usb 2-1.8: new low-speed USB device number 119 using ehci-pci | |
| [2686644.798923] usb 2-1.8: New USB device found, idVendor=09ae, idProduct=3015 | |
| [2686644.798930] usb 2-1.8: New USB device strings: Mfr=2, Product=3, SerialNumber=4 | |
| [2686644.798933] usb 2-1.8: Product: TRIPP LITE SMART2200RM2U | |
| [2686644.798937] usb 2-1.8: Manufacturer: Tripp Lite | |
| [2686644.798953] usb 2-1.8: SerialNumber: 2524DY0SM820700076 | |
| [2686644.926819] hid-generic 0003:09AE:3015.2BC64: hiddev0,hidraw4: USB HID v1.10 Device [Tripp Lite TRIPP LITE SMART2200RM2U ] on usb-0000:00:1d.0-1.8/input0 | |
| [2686659.539080] usb 2-1.8: USB disconnect, device number 119 |
jblachly
/ golang_json_datetime.go
Created
July 24, 2016 20:25
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| package main | |
| import ( | |
| "encoding/json" | |
| "fmt" | |
| "time" | |
| ) | |
| type Duration time.Duration |
jblachly
/ tripplite.md
Last active
July 24, 2016 13:48
rem_drv hid
//add doesnt work because 'ugen' already in use
//add_drv -i '"/dev"' -m '* 0666 nut root' -v ugen
update_drv -a -i '"usb9ae,3015.20a"' -m '* 0666 nut root' -v ugen
usb-vendor-id: 9ae usb-product-id: 3015
jblachly
/ Snakemake-Undocumented.md
Last active
April 8, 2016 18:10
Undocumented Snakemake functionality
wildcards only appears in two cases as far as I can tell
- when using a function to define input files
- in a lambda function , as in e.g. params:
stagger_len = lambda wildcards: stagger(int(wildcards.REVNUM))
Including variables in an expansion doesn't seem to work at first:
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