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Full Discussion: Bash to append array value to file before copying
Top Forums UNIX for Beginners Questions & Answers Bash to append array value to file before copying Post 303039946 by cmccabe on Friday 18th of October 2019 12:04:05 PM
Old 10-18-2019
Hopefully, this is better and helps:
Code:
# Set run array
array=( $(awk -F '\n' -v RS="" -v ref="$s5" '$0 ~ ref {d=split($0, val, " "); for(i=2;i<d;i+=2) printf "%s ",val[i]; printf "\n"}' list | tr -d '\r') )  ## match run in rna.barcode and extract patient

# iterate through array
for ID in "${array[*]}" ; do
echo "$ID" > /tmp/out.txt
       echo "( cd /path/to/${ID}*/path/to/folder && xec sshpass -f file.txt scp -- *.png* xxx@xxx.xx.xx.xxx:/path/to/destination/${ID}-cn_results)"
       sshpass -f out.txt ssh -o strictHostKeyChecking=no -t xxx@xxx.xx.xx.xx
done

Contents of out --- This is array with all samples one one line ---
Code:
ID1 ID2

echo to terminal
Code:
( cd /path/to/ID1 ID2*/*/path/to/folder && exec sshpass -f file.txt scp -- *.png* xxx@xxx.xx.xx.xxx:/path/to/destination/ID1 ID2-cn_results.png)

Code:
├──/path/to/   ---- common path after ssh ---
│   ├── ID1*   --- unique ${ID}* represents random text ---
│   │   └── /this/ID1/folder
│   ├── ID2*   --- unique ${ID}* represents random text ---
│   │   └── /this/ID2/folder
Description:

After ssh to the common path on the server, each unique ID is used to further navigate to folder. In each folder there is a png (cn_results), that the unique ID is append to (ID-cn_results) and this 
append file is scp to xxx@xxx.xx.xx.xxx:/path/to/destination. It seems that since array is one line both are being used and that is causing the error?

 

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LEARN ABOUT CENTOS

cmpivalue

3(2005-06-09)															     3(2005-06-09)

NAME

       CMPIValue - CMPIValue class implementation

SYNOPSIS

   Public Attributes
       CMPIUint64 uint64
       CMPIUint32 uint32
       CMPIUint16 uint16
       CMPIUint8 uint8
       CMPISint64 sint64
       CMPISint32 sint32
       CMPISint16 sint16
       CMPISint8 sint8
       CMPIReal64 real64
       CMPIReal32 real32
       CMPIBoolean boolean
       CMPIChar16 char16
       CMPIInstance * inst
       CMPIObjectPath * ref
       CMPIArgs * args
       CMPIEnumeration * Enum
       CMPIArray * array
       CMPIString * string
       char * chars
       CMPIDateTime * dateTime
       CMPIValuePtr dataPtr
       CMPISint8 Byte
       CMPISint16 Short
       CMPISint32 Int
       CMPISint64 Long
       CMPIReal32 Float
       CMPIReal64 Double

METHODS

       void native_release_CMPIValue (CMPIType type, CMPIValue *val)
       CMPIValue native_clone_CMPIValue (CMPIType type, CMPIValue *val, CMPIStatus *rc)
       char * pathToChars (CMPIObjectPath *cop, CMPIStatus *rc, char *str, int uri)
       char * value2CharsUri (CMPIType type, CMPIValue *value, int uri)
       char * value2Chars (CMPIType type, CMPIValue *value)
       char * keytype2Chars (CMPIType type)
       CMPIValue * getKeyValueTypePtr (char *type, char *value, XtokValueReference *ref, CMPIValue *val, CMPIType *typ)
       CMPIType guessType (char *val)
       CMPIValue str2CMPIValue (CMPIType type, char *val, XtokValueReference *ref)

DESCRIPTION

       CMPIValue class implementation, representing the Encapsulated value objects.

       This  is  the  native CMPIValue implementation as used for remote providers. It reflects the well-defined interface of a regular CMPIValue,
       however, it works independently from the management broker.

       It is part of a native broker implementation that simulates CMPI data types rather than interacting  with  the  entities  in  a	full-grown
       CIMOM.

SEE ALSO

       Common Manageability Programming Interface (CMPI) - OpenGroup

SFCBroker Client Library					       sfcc							     3(2005-06-09)
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