Display Features in Protein Align (Local Align) Inherit Features when copying/Pasting Protein sequences Non formatted copy of Protein sequence (Copy More… Menu) A rapid switch between a DNA and Protein Align window Inherit Features when reverse-translating a DNA sequence Scan for peptide Features in Protein Sequences A button/menu to choose particular sites to be displayed in Restriction maps. An option in the Restriction Map window to only translate nucleotides that are in uppercase An option in the Preferences to use the Codon code from Codon Usage tables as a Genetic code used for translation An option in the Preferences to select pK value tables to use for pI estimation MacOSX version now distributed as a signed application (Mountain Lion Gatekeeper compatibility) Estimates Isoelectric point of protein sequences (DNA and Protein Sequence Window) (see the available contextual help window to get more details on new functions) Serial Cloner is still distributed as a freeware although you are welcome to support it making a donation (see the link on the web site or the About. You will see underneath a more complete list of Additions/Corrections present in Serial Cloner 2.6. I will try to post regularly Serial Cloner Tutorial there. A link to SerialBasics YouTube Channel has been added also. I also try to answer to questions there although not as frequently as I would like to. I also added links (in the Window Menu) to the Serial Cloner Forum so that people can help each other and share tips and ressources. Another much requested improvement is the ability to fully resize Sequence windows has now been implemented. The codon table linked to the codon biais table can now be used when reverse translating. It is also possible to see the features when aligning proteins and Features are inherited when translating a DNA sequence. I have improved the management and use of protein sequences: Serial Cloner is now estimating the isolelectric point pf proteins using different models you can select in the preferences. I'm using Atmel Studio, which has Arduino extension for importing sketches.As always, many thanks to all who suggested improvement, directly, by emails or using the forum and who found nasty bugs. Program it with Upload using programmer commend (Ctrl+Shift+U) Cut/desolder RESET-EN pad on your Arduino board.Ĥ. Change AVRDUDE in \Arduino\hardware\tools\avr\bin to older or compiled with patch, and may be it's config file in Arduino\hardware\tools\avr\etc. You can cut it (solder them back together or reset every time you upload sketch when you to go back to Arduino) or transfer ATmega328 to breadboard and connect it's XTAL pins to to crystal on Arduino board in order to program and change fuses (don't be afraid of them, they are simple stuff, just change oscillator to internal 8MHz if you want to use ATmega328 without additional XTAL wires - you'll gain additional 2 pins) or buy yourself a 16MHz crystal.Īccording to all of this you should be able to upload sketches to your ATmega328 with Arduino IDE, but you have to:ġ. I was unable to program ATmega328 onboard Arduino unless I cut RESET EN pad (I mean reset line, because my clone doesn't have pad :( see photo) because AVRISP mkII uses reset pin of XXU2 for something else. Either use AVRDUDE versions prior to 6.x.x or apply this patch to the AVRDUDE sources and compile. There is a software bug that affects LUFA-based programmers in newest releases of AVRDUDE. What is the problem? Is my programmer bricked? A: The hardware of your AVR-ISP-MK2 is fine. I also tested with the latest Arduino IDE. Still I can't properly program my target with AVRDUDE. Go to memories and program uC with desired hex.Īnd this unfortunately :( (copied from Olimex's Q'n'A): Q:I have performed a firmware switch. You can upload any hex with Atmel Studio View>Select Available Atmel tools>RMB on AVRISP mkII>Device Programming>select device and apply, set 16,1kHz clock and read device signature. You can compile hex files with Arduino IDE just show verbose output of compiler (file>preferences). I believe, that this insctructable would work with ease on Arduino Micro and Leonardo and would give you simple way to add level translator and easy acces to TPI and PDI protocols' pins for few ATtiny (most of theme have ISP) and ATXmega.įor going back you can again burn HoodLoader2 DFU bootloader with serial or follow Arduinos tutorial DFUProgramming8U2. As you may notice this setup is not fully compatible to AVRISP mkII, but you can do it adding few resistors and level translator chip, just follow this hackaday article (autor says that you should not use MAX3002 level translator IC but GTL2003 or Olimex's schematic (which does not have level translator)
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