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Expressing dissatisfaction over the case diary that was produced by the investigating officer to the court.
The court directed the Pune police to submit copies of case diaries.
The investigating officer then starts a case diary detailing the progress of the case.
Hema also observed that nowhere in the case diary is there any mention that the church had tried to influence the investigation.
She stated that the arguments of the CBI counsel were not based on the facts as recorded in the case diary.
The case diary indicates that it was Augustine, who was in charge of the case for only two days, recorded the possibility of murder.
Hema found that the arguments of the CBI counsel were based on the stories appearing in the media rather than on the case diary.
He had arrived at the conclusion that Abhaya's death was a case of murder and he had recorded it as such in the Case Diary.
Based on the case diary, Hema found that the CBI investigation was "only a chase for the shadow rather the object in this case."
Three days after the shooting incident, she wrote a note in her case diary describing her concerns: "Have not been permitted to investigate by the unit... to date.
Oru Abhibhashakante Case Diary is a 1995 Malayalam movie about a lawyer who seeks justice for a teenage girl who was raped and murdered.
In May 1998 the CBI admitted that Y.P. Singh's case diary had indeed been lost and might have been deliberately destroyed.
"Three Little Bonzes: The Case Diary of Chinami Chiba" (The BBB: Breakthrough Bandwagon Books, 2014)
The CBI had alleged that Augustine had destroyed evidence and closed the case as a suicide, but the case diary revealed it was Augustine who pointed to the possibility of homicide.
Hema also criticised the media and the public, which pronounced the verdict knowing very little about the facts of the case, including the 24 volumes of case diary, the medical reports and the statements from the doctors.
But Justice Hema, who heard the bail petition of the accused, based on Case Diaries, mentioned that the narco analysis CDs might have been manipulated and wanted the originals to be produced in court.
The Hyderabad High Court had last week directed the Andhra Pradesh Police to furnish the case diary before the court today (28 April), relating to a case registered in connection with the killing of the 20 people in police firing.
On December 10, following a petition submitted by the deceased's relatives, the High Court of Kerala ordered the CBI to submit the case diary before the court in connection with the March 2009 custodial death of Sampath.