Modifying bam file sequence names according to 2nd column

[jyu429]

Hi,

I want to modify the sequence names in my bam file. They're supposed to be for paired end, but the names don't have /1 and /2 so I can't use software like bedtools bam2fastq. Anyway, I'd like to add /1 to the end of the name if the flag in the second column is 99 or 83 and then /2 if its 163 or 147. For instance

HSQ1008:141:D0CC8ACXX:3:2202:1520:59984 163     chr14   105899906       60      101M    =       105900110       305     CCTTTCCAGGAAAGGGAGTAGCGAGGCTGCTCACTTAGAGCCACGCACCTGGGGCTGACAGTGTGCCTGGCAGTACCTGTGTGGAAAGACAGTTACAGAGG   @C@DDFDDHHHHAHGBHG1AFHIGIJGIIGEIJIGIFE?BBGIIIIBHIEGHHHFFFEEEEEEDCCCCCDDCD?CACCDDDCBB@ACBC?CCDCCCACAC8   RG:Z:NA12877    XT:A:U  NM:i:0  SM:i:37 AM:i:37 X0:i:1  X1:i:0  XM:i:0  XO:i:0  XG:i:0  MD:Z:101

should become

HSQ1008:141:D0CC8ACXX:3:2202:1520:59984/2 163     chr14   105899906       60      101M    =       105900110       305     CCTTTCCAGGAAAGGGAGTAGCGAGGCTGCTCACTTAGAGCCACGCACCTGGGGCTGACAGTGTGCCTGGCAGTACCTGTGTGGAAAGACAGTTACAGAGG   @C@DDFDDHHHHAHGBHG1AFHIGIJGIIGEIJIGIFE?BBGIIIIBHIEGHHHFFFEEEEEEDCCCCCDDCD?CACCDDDCBB@ACBC?CCDCCCACAC8   RG:Z:NA12877    XT:A:U  NM:i:0  SM:i:37 AM:i:37 X0:i:1  X1:i:0  XM:i:0  XO:i:0  XG:i:0  MD:Z:101

How should I go about this? The bam file is also missing header information. Thanks!