请教关于intersystems 的cache数据库的相关知识

1、安装cache之前必须先安装IIS。 //用来解析CSP

IIS在控制面板->添加或删除程序 ->添加/删除Windows组件 ->Internet信息服务(IIS)添加；

2、cache(Ensemble)安装步骤总共十二步

3.安装完成后 shutdown数据库。

4.拷贝原库Cache.cpf到EnsembleSys根目录下，cpf中主要配置数据库存放路径，根据事情情况可以自己修改cpf文件，或者在

System management Portal->Local Databases->Home->Configuration->Local Databases->Edit

5.拷贝Cache.key到EnsembleSys\Mgr根目录下；

CSP的配置

按照原库路径配置以下内容

1、设置路径： [Home] >[Security Management] >[CSP Applications] >[Create NEW CSP Application]>[Save]；

2、Csp Application路径为IE访问路径

3、Resource required to run the application: %Service CSP

4 、Namespace: ————————

5、CachePhysicalPath:“数据库存放路径”

6、Default Superclass:locale.Chinese

CSP Gateway Management的设置

设置路径[Home] >[Configuration] >[CSP Gateway Management]

Server Access（一般安装数据库后自动生成）

Application Access（需要添加一个）

IIS中虚拟目录设置 // 只使用数据库 不考虑

*** 作路径：控制面板->管理工具->Internet 信息服务->(本地计算机->网站->默认网站) 。如果以前添加了站点，那么在完成上一步CSP设置之后，需要删除原来的IIS站点，重新添加。

此处注意权限。

对上面 *** 作步骤说明

1、虚拟目录别名为

2、第四步目录名称必须指向数据存放路径下，

3、第四步执行权限全选； //写CLS CSP 需要配置

补丁 *** 作

注意：在做补丁之前需要把CACHELIB的ReadOnly更改为No，做完补丁后再更改回Yes。

将以下内容拷贝到C:\EnsembleSys\Mgr\FDBMS

Patch\FDBMS_F173_Cache_52_WNT下CACHE.DAT文件

Patch\ qaqcasl523.mro文件

将以下内容拷贝到C:\EnsembleSys\CSP\sys\mgr

Patch\adhoc5412plus\adhoc5412\UtilConfigSQL.csp

%SYS>zn "fdbms"

FDBMS>d ^mdbmsins("","FDBMS")

Converting User Security Definitions.....DONE

CONVERTING USER PASSWORDS...

ALL DONE

FDBMS>d integ^mdbmsins()

FDBMS>d ^%RIMF

Load routines from a %ROMF file.

WARNING: This routine will delete the source code (if any)

for existing object routines that are being replaced.

Device: C:\patch\FDBMS_F173_Cache_52_WNT\qarmacF173.mro

file format: ("UR") =>

M/WNT wrote this file on Nov 03 2006 3:03 PM.

File Comment: patch for compiling routines in FDBMS

( All Select Enter List Quit )

Routine Input Option: all

If a selected routine has the same name as one already on file,

shall it replace the one on file? No =>yes

Building existing routine list ... done.

@ indicates routines which have been saved to disk.

. indicates routines which already exist in this directory.

Loading Routines ...

%qarmac@.

1 routine in 0 minutes, 0 seconds

none of them skipped.

FDBMS>

FDBMS>d ^%RIMF

Load routines from a %ROMF file.

WARNING: This routine will delete the source code (if any)

for existing object routines that are being replaced.

Device: C:\patch\FDBMS_F173_Cache_52_WNT\SYS.SQLSRV.mro

file format: ("UR") =>

M/WNT wrote this file on Nov 03 2006 3:03 PM.

File Comment: patch for compiling routines in FDBMS

( All Select Enter List Quit )

Routine Input Option: all

If a selected routine has the same name as one already on file,

shall it replace the one on file? No =>yes

Building existing routine list ... done.

@ indicates routines which have been saved to disk.

. indicates routines which already exist in this directory.

Loading Routines ...

FDBMS>

再做adhoc5412plus.zip（如文档readme_5412.txt，需要拷贝UtilConfigSQL.csp到C:\EnsembleSys\CSP\sys\mgr下）；

FDBMS>zn "%sys"

%SYS>d ^%RI

Input routines from Sequential

Device: C:\patch\adhoc5412plus\adhoc5412\adhoc5412.rsa

Parameters? "RS" =>

File written by Cache for Windows using %RO on 17 May 2007 9:32 PM

with extensions INC,INT and with description:

( All Select Enter List Quit )

Routine Input Option: all

If a selected routine has the same name as one already on file,

shall it replace the one on file? No =>yes

Generate backups? No =>No

Recompile? Yes =>yes

Display Syntax Errors? Yes =>yes

^ indicates routines which will replace those now on file.

@ indicates routines which have been [re]compiled.

- indicates routines which have not been filed.

%msql.INC^ syConfig.INC^ STUCNFG1.INT@

3 routines processed.

%SYS>s path="C:\patch\adhoc5412plus\adhoc5412\SQL.xml"

%SYS>do $SYSTEM.OBJ.Load(path,"cbrps")

Load started on 04/12/2008 10:56:40

Loading file C:\patch\adhoc5412plus\adhoc5412\SQL.xml as xml

Imported class: %SYSTEM.SQL

Compiling class %SYSTEM.SQL

Compiling routine %SYSTEM.SQL.1

ERROR: Compiling class includes

Processing %systemInclude.INC into a precompiled header

Load finished successfully.

%SYS>s path="C:\patch\adhoc5412plus\adhoc5412\adhoc5412.xml"

%SYS>do $SYSTEM.OBJ.Load(path,"brpsu")

Load started on 04/12/2008 10:57:57

Loading file C:\patch\adhoc5412plus\adhoc5412\adhoc5412.xml as xml

Imported object code: %SYS.PATCH

Imported global: ^CacheTempPatch

Load finished successfully.

%SYS>do ^%MGDIR

You're in namespace %SYS

Default directory is c:\ensemblesys\mgr\

%SYS>do ^%SYS.PATCH

Apply Patch Utility

Adhoc: 5412

Description: PVA089,DPV2673

Created at: 2007-05-18 00:51:28

Created on $zv: Cache for Windows (Intel) 5.2.3 (Build 710)

Apply (Y/N) y

Applying Patch...

.......

Successfully Applied!

Please test the patch. If it fails, you can remove the

patch by executing the following command:

Do Restore^%SYS.PATCH()

%SYS>d $System.CSP.LoadPage("/csp/sys/mgr/UtilConfigSQL.csp","fc")

Compiling file /csp/sys/mgr/UtilConfigSQL.csp

Compiling class %cspapp.mgr.utilconfigsql

Compiling routine %cspapp.mgr.utilconfigsql.1

%SYS>d $System.OBJ.Load("C:\patch\Collection.ListOfDT.xml","fc")

Load started on 04/12/2008 12:17:50

Loading file C:\patch\Collection.ListOfDT.xml as xml

Imported class: %Collection.ListOfDT

Compiling class %Collection.ListOfDT

Compiling routine %Collection.ListOfDT.1

Load finished successfully.

%SYS>d ^%RIMF

Load routines from a %ROMF file.

WARNING: This routine will delete the source code (if any)

for existing object routines that are being replaced.

Device: C:\EnsembleSys\Mgr\FDBMS\qaqcasl523.mro

file format: ("UR") =>

M/WNT wrote this file on May 18 2007 3:48 PM.

File Comment: backport of AK626, fix INTO :Array() problem

( All Select Enter List Quit )

Routine Input Option: all

If a selected routine has the same name as one already on file,

shall it replace the one on file? No =>yes

Building existing routine list ... done.

@ indicates routines which have been saved to disk.

. indicates routines which already exist in this directory.

Loading Routines ...

%qaqcasl@.

1 routine in 0 minutes, 0 seconds

none of them skipped.

%SYS>

%SYS>zn "DHC-APP"

DHC-APP>d $system.SQL.Purge(0)

更改SQL Setting

[Home] > [Configuration] >[SQL Settings]

将DISTINCT optimization turned on 的值置为 Yes ,保存,然后再置成No保存.

全部做完后把CACHELIB的ReadOnly更改为Yes

​Ensembl

http://www.ensembl.org/index.html

1.选择物种，搜索基因。

2.点击进入基因的summary页面。

3.点击左侧sequence，得到序列信息。

4.橘色背景红色字体序列为exon区域，第一个外显子前边的序列即为promoter序列，默认设置为600bp。        

5.若想获取更长的promoter序列，点击左侧“Configure this page”重新配置。

6.修改5' Flanking sequence (upstream)，例如修改为1000，保存并关闭，即可得到更新后1000bp的promoter序列。

7.在UCSC中核实（Ensembl和UCSC注释之间就TSS的识别可能存在差异）。复制启动子序列，在UCSC进行blat，点击第一条的browser进入基因组浏览界面，zoom out 3X，查看页面确保启动子序列符合UCSC注释（输入的序列在目标基因的第一个exon之前，序列区域内有CpG岛）。

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