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Sci-Ed Software
Software for the Molecular Biologist

Clone Manager Professional 9 Update

If you are using Clone Manager Professional version 9, you can download a software patch that will update your program to the latest version (ver 9.4). This update adds a new module that handles sequence phrase collections. You can also download the latest version of the program's compiled HTML Help.

Update Description

This update includes a new sequence phrase collections module. You can now construct and use collections of sequence phrases. You can use these collections to find sequence phrase sites in a specific molecule or scan for molecules that contain a specific sequence phrase. Short sequence phrase locations can be saved as labels in the Clone Manager file. Label sites can now be shown on the working map above (outside) the map line in place of enzyme or primer sites. Label sites can also now be used in Enhanced view maps.

This update also includes a number of small program corrections in code that handles ambiguous sites over the top of the map in the RMap display, sequence insertion at the end of circular molecules, primer hairpin display of single base loops, and the display of the number of bases selected in the sequence editor when the number is greater than 6 digits.

Installing this update will also set the browser emulation mode for the embedded Clone Manager web browser control (if not already set), and automatically update the Entrez URL (if not already changed).

This update also includes all corrections and additions made in prior version 9 incremental updates, including a new Assembly Cloning module, a new Gateway Cloning Wizard, a new Topoisomerase Cloning Wizard and a new Retrieve from Entrez (E-utils) function.

Concurrent User License holders -- this update also includes a network administrator's toolkit. These administrator tools will help you to install and configure the software, turn on token logging, monitor tokens in use, and trouble-shoot problems you may encounter running the network edition of Clone Manager.

Non-Network Version Update Instructions

Individual or WorkGroup (Seat) License holders can download and install the incremental software update. Click below to begin the download to your computer. When prompted, select Save to write a copy of the file to your hard disk.

Download non-network software patch update (2735 KB) now

After download, make sure Clone Manager Professional is not in use. Then double-click on the downloaded file CMPUp940.exe to start the update process. The incremental update program will search your computer system, looking for an eligible program copy to update. If it finds a copy of Clone Manager Professional 9.x, it will be updated to Clone Manager Professional 9.4.

Network Version Update Instructions

For Concurrent User Licenses, the Network Administrator should download and install the update. Click below to begin the download.

Download network software patch update (4574 KB) now

The update must be performed at the computer that is the license server and under the account used to install the software. (The computer that is the license server will have the file C:\ProgramFiles\SciEdLicense\SciEdLicense.exe.)

First, make sure Clone Manager Professional is not in use. Then double-click on the downloaded file nCMPU940.exe to start the update process. The incremental update program will check your computer system, looking for an eligible program copy to update. If it finds a copy of Clone Manager Professional 9.x, it will be updated to Clone Manager Professional 9.4 and the network administrator tools will be installed.

Network Admin Tools documentation is included with the patch update download. For immediate review, please see the Network Admin Documents section (left panel menu item).

Help System Update

You can download the compiled HTML Help file for Clone Manager Professional 9 to replace an earlier version of this file. Users running the network version of the program can use this file to provide local help access, eliminating the need to try to load a compiled help file across network security barriers.

Click below to begin the download to your computer. When prompted, select Save to write a copy of the file to your hard disk.

Download compiled HTML help file (391 KB) now

After download, move the downloaded file CMSuite9.chm to your Clone Manager home directory. (The default home directory is CMHome, located in the My Documents folder. To check your home directory location: in Clone Manager, click File, Preferences and then look on the Basic tab in the Location field. Users running the network version should have assigned a home directory on their local machine.) When a new help file is placed in your home directory, Clone Manager will use this file in preference to the help file originally installed.

You may need to unblock this help file before use. In File Explorer, right-click on the help file CMSuite9.chm and select Properties from the menu. Click the Unblock button (lower right) on the General page and then click Apply. If you do not see the Unblock button, you may need to log on as administrator.

User Documentation

Help topics for the new sequence phrase collections module added in update 9.4 are provided in a four-page PDF document. You can open this file to view or print using Adobe Acrobat.

View/print supplemental help document SHlp_940.pdf now

Help topics for the new Assembly Cloning wizard added in update 9.3 are provided in a two-page PDF document. You can open this file to view or print using Adobe Acrobat.

View/print supplemental help document SHlp_930.pdf now

Help topics for the new Retrieve from Entrez (E-utils) module and the new Topoisomerase Cloning Wizard added in update 9.2 are provided in a four-page PDF document. You can open this file to view or print using Adobe Acrobat.

View/print supplemental help document SHlp_920.pdf now

Help topics for the new Gateway Cloning Wizard added in update 9.1 are provided in a four-page PDF document. You can open this file to view or print using Adobe Acrobat.

View/print supplemental help document SHlp_910.pdf now

January 2015

Update 9.x to 9.4

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For use with Clone Manager Professional 9.

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If you are using Clone Manager Basic, please select the Clone Manager Basic update (on menu at left).

If you are unsure which edition of Clone Manager you are using, you can start Clone Manager and then click Help, About Clone Manager.

The About box will provide you with the program name/edition, license type, and your program serial number.